# HG changeset patch # User florianbegusch # Date 1527142304 14400 # Node ID 09b7bcb72fa7e11878e4ef089395e0df0e8008ac Uploaded diff -r 000000000000 -r 09b7bcb72fa7 merge_feature_table_and_taxonomy.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/merge_feature_table_and_taxonomy.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,30 @@ + + + - Merge features and taxonomy into a single biom file. + + qiime2 + + +mkdir out; + +qiime tools export --output-dir out $taxonomy_qza; +qiime tools export --output-dir out $biom_qza; + +sed -i '1s;^;#;' out/*.tsv; +sed -i 's/Confidence/confidence/g' out/*.tsv; +sed -i 's/Taxon/taxonomy/g' out/*.tsv; +sed -i 's/Feature ID/OTU ID/g' out/*.tsv; + +biom add-metadata -i out/*.biom -o table_with_sample_metadata.biom --observation-metadata-fp out/*.tsv +; +mv *.biom $biom_and_tax_merged + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_alignment_mafft.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_alignment_mafft.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,49 @@ + + + - De novo multiple sequence alignment with MAFFT + + qiime2 + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_alignment_mask.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_alignment_mask.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,68 @@ + + + - Positional conservation and gap filtering. + + qiime2 + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_composition_add-pseudocount.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_composition_add-pseudocount.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,51 @@ + + + - Add pseudocount to table + + qiime2 + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_composition_ancom.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_composition_ancom.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,90 @@ + + + - Apply ANCOM to identify features that differ in abundance. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_cutadapt_demux-paired.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_cutadapt_demux-paired.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,78 @@ + + + - Demultiplex paired-end sequence data with barcodes in- sequence. + + qiime2 + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_cutadapt_demux-single.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_cutadapt_demux-single.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,77 @@ + + + - Demultiplex single-end sequence data with barcodes in- sequence. + + qiime2 + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_cutadapt_trim-paired.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_cutadapt_trim-paired.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,182 @@ + + + - Find and remove adapters in demultiplexed paired-end sequences. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_cutadapt_trim-single.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_cutadapt_trim-single.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,141 @@ + + + - Find and remove adapters in demultiplexed single-end sequences. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_dada2_denoise-paired.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_dada2_denoise-paired.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,172 @@ + + + - Denoise and dereplicate paired-end sequences + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_dada2_denoise-pyro.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_dada2_denoise-pyro.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,164 @@ + + + - Denoise and dereplicate single-end pyrosequences + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_dada2_denoise-single.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_dada2_denoise-single.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,142 @@ + + + - Denoise and dereplicate single-end sequences + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_deblur_denoise-16S.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_deblur_denoise-16S.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,121 @@ + + + - Deblur sequences using a 16S positive filter. + + qiime2 + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_deblur_denoise-other.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_deblur_denoise-other.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,122 @@ + + + - Deblur sequences using a user-specified positive filter. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_deblur_visualize-stats.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_deblur_visualize-stats.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,44 @@ + + + - Visualize Deblur stats per sample. + + qiime2 + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_demux_emp-paired.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_demux_emp-paired.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,80 @@ + + + - Demultiplex paired-end sequence data generated with the EMP protocol. + + qiime2 + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_demux_emp-single.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_demux_emp-single.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,79 @@ + + + - Demultiplex sequence data generated with the EMP protocol. + + qiime2 + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_demux_summarize.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_demux_summarize.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,56 @@ + + + - Summarize counts per sample. + + qiime2 + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_alpha-correlation.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_alpha-correlation.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,71 @@ + + + - Alpha diversity correlation + + qiime2 + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_alpha-group-significance.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_alpha-group-significance.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,57 @@ + + + - Alpha diversity comparisons + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_alpha-phylogenetic.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_alpha-phylogenetic.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,55 @@ + + + - Alpha diversity (phylogenetic) + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_alpha-rarefaction.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_alpha-rarefaction.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,133 @@ + + + - Alpha rarefaction curves + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_alpha.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_alpha.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,79 @@ + + + - Alpha diversity + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_beta-group-significance.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_beta-group-significance.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,91 @@ + + + - Beta diversity group significance + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_beta-phylogenetic-alt.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_beta-phylogenetic-alt.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,108 @@ + + + - Beta diversity (phylogenetic) - High Performance Computation + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_beta-phylogenetic.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_beta-phylogenetic.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,63 @@ + + + - Beta diversity (phylogenetic) + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_beta-rarefaction.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_beta-rarefaction.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,172 @@ + + + - Beta diversity rarefaction + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_beta.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_beta.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,77 @@ + + + - Beta diversity + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_bioenv.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_bioenv.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,63 @@ + + + - bioenv + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_core-metrics-phylogenetic.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_core-metrics-phylogenetic.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,158 @@ + + + - Core diversity metrics (phylogenetic and non- phylogenetic) + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_core-metrics.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_core-metrics.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,115 @@ + + + - Core diversity metrics (non-phylogenetic) + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_filter-distance-matrix.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_filter-distance-matrix.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,88 @@ + + + - Filter samples from a distance matrix. + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_mantel.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_mantel.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,99 @@ + + + - Apply the Mantel test to two distance matrices + + qiime2 + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_pcoa.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_pcoa.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,42 @@ + + + - Principal Coordinate Analysis + + qiime2 + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_diversity_procrustes-analysis.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_diversity_procrustes-analysis.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,58 @@ + + + - Procrustes Analysis + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_emperor_plot.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_emperor_plot.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,67 @@ + + + - Visualize and Interact with Principal Coordinates Analysis Plots + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_emperor_procrustes-plot.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_emperor_procrustes-plot.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,75 @@ + + + - Visualize and Interact with a procrustes plot + + qiime2 + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-classifier_classify-consensus-blast.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-classifier_classify-consensus-blast.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,123 @@ + + + - BLAST+ consensus taxonomy classifier + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-classifier_classify-consensus-vsearch.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-classifier_classify-consensus-vsearch.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,120 @@ + + + - VSEARCH consensus taxonomy classifier + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-classifier_classify-sklearn.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-classifier_classify-sklearn.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,102 @@ + + + - Pre-fitted sklearn-based taxonomy classifier + + qiime2 + + = 0.0: + --p-confidence=$pconfidence + #end if + #end if + + #if str($preadorientation) != 'None': + --p-read-orientation=$preadorientation + #end if + + #if str($cmdconfig) != 'None': + --cmd-config=$cmdconfig + #end if + + #set $pnjobs = '${GALAXY_SLOTS:-4}' + --p-n-jobs="$pnjobs" + --o-classification=oclassification; + + cp oclassification.qza $oclassification; + ]]> + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-classifier_extract-reads.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-classifier_extract-reads.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,68 @@ + + + - Extract reads from reference + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-classifier_fit-classifier-naive-bayes.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-classifier_fit-classifier-naive-bayes.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,266 @@ + + + - Train the naive_bayes classifier + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-classifier_fit-classifier-sklearn.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-classifier_fit-classifier-sklearn.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,80 @@ + + + - Train an almost arbitrary scikit-learn classifier + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_core-features.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_core-features.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,76 @@ + + + - Identify core features in table + + qiime2 + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_filter-features.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_filter-features.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,129 @@ + + + - Filter features from table + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_filter-samples.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_filter-samples.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,121 @@ + + + - Filter samples from table + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_filter-seqs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_filter-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,100 @@ + + + - Filter features from sequences + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_group.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_group.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,92 @@ + + + - Group samples or features by a metadata column + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_heatmap.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_heatmap.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,349 @@ + + + - Generate a heatmap representation of a feature table + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_merge-seqs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_merge-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,58 @@ + + + - Combine collections of feature sequences + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_merge-taxa.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_merge-taxa.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,60 @@ + + + - Combine collections of feature taxonomies + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_merge.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_merge.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,69 @@ + + + - Combine multiple tables + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_presence-absence.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_presence-absence.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,45 @@ + + + - Convert to presence/absence + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_rarefy.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_rarefy.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,50 @@ + + + - Rarefy table + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_relative-frequency.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_relative-frequency.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,49 @@ + + + - Convert to relative frequencies + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_subsample.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_subsample.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,64 @@ + + + - Subsample table + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_summarize.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_summarize.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,63 @@ + + + - Summarize table + + qiime2 + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_feature-table_tabulate-seqs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_feature-table_tabulate-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,47 @@ + + + - View sequence associated with each feature + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_add-pseudocount.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_add-pseudocount.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,51 @@ + + + - Add pseudocount to table + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_assign-ids.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_assign-ids.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,53 @@ + + + - Assigns ids on internal nodes in the tree, and makes sure that they are consistent with the table columns. + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_balance-taxonomy.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_balance-taxonomy.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,127 @@ + + + - Balance Summary + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_correlation-clustering.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_correlation-clustering.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,50 @@ + + + - Hierarchical clustering using feature correlation. + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_dendrogram-heatmap.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_dendrogram-heatmap.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,181 @@ + + + - Dendrogram heatmap. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_gradient-clustering.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_gradient-clustering.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,79 @@ + + + - Hierarchical clustering using gradient information. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_ilr-transform.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_ilr-transform.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,52 @@ + + + - Isometric Log-ratio Transform + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_lme-regression.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_lme-regression.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,75 @@ + + + - Simplicial Linear mixed effects regression + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_gneiss_ols-regression.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_gneiss_ols-regression.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,79 @@ + + + - Simplicial Ordinary Least Squares Regression + + qiime2 + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_first-differences.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_first-differences.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,128 @@ + + + - Compute first differences or difference from baseline between sequential states + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_first-distances.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_first-distances.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,115 @@ + + + - Compute first distances or distance from baseline between sequential states + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_linear-mixed-effects.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_linear-mixed-effects.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,152 @@ + + + - Linear mixed effects modeling + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_nmit.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_nmit.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,95 @@ + + + - Nonparametric microbial interdependence test + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_pairwise-differences.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_pairwise-differences.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,160 @@ + + + - Paired difference testing and boxplots + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_pairwise-distances.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_pairwise-distances.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,152 @@ + + + - Paired pairwise distance testing and boxplots + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_longitudinal_volatility.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_longitudinal_volatility.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,111 @@ + + + - Volatility analysis + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_metadata_distance-matrix.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_metadata_distance-matrix.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,59 @@ + + + - Create a distance matrix from a numeric Metadata column + + qiime2 + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_metadata_tabulate.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_metadata_tabulate.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,66 @@ + + + - Interactively explore Metadata in an HTML table + + qiime2 + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_phylogeny_fasttree.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_phylogeny_fasttree.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,48 @@ + + + - Construct a phylogenetic tree with FastTree. + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_phylogeny_filter-table.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_phylogeny_filter-table.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,49 @@ + + + - Remove features from table if they're not present in tree. + + qiime2 + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_phylogeny_midpoint-root.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_phylogeny_midpoint-root.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,44 @@ + + + - Midpoint root an unrooted phylogenetic tree. + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_quality-control_evaluate-composition.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_quality-control_evaluate-composition.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,205 @@ + + + - Evaluate expected vs. observed taxonomic composition of samples + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_quality-control_evaluate-seqs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_quality-control_evaluate-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,72 @@ + + + - Compare query (observed) vs. reference (expected) sequences. + + qiime2 + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_quality-control_exclude-seqs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_quality-control_exclude-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,106 @@ + + + - Exclude sequences by alignment + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_quality-filter_q-score-joined.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_quality-filter_q-score-joined.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,84 @@ + + + - Quality filter based on joined sequence quality scores. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_quality-filter_q-score.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_quality-filter_q-score.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,84 @@ + + + - Quality filter based on sequence quality scores. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_sample-classifier_classify-samples.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_sample-classifier_classify-samples.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,201 @@ + + + - Supervised learning classifier. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_sample-classifier_maturity-index.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_sample-classifier_maturity-index.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,199 @@ + + + - Microbial maturity index prediction. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_sample-classifier_regress-samples.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_sample-classifier_regress-samples.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,175 @@ + + + - Supervised learning regressor. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_taxa_barplot.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_taxa_barplot.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,93 @@ + + + - Visualize taxonomy with an interactive bar plot + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_taxa_collapse.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_taxa_collapse.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,82 @@ + + + - Collapse features by their taxonomy at the specified level + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_taxa_filter-seqs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_taxa_filter-seqs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,124 @@ + + + - Taxonomy-based feature sequence filter. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_taxa_filter-table.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_taxa_filter-table.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,126 @@ + + + - Taxonomy-based feature table filter. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_tools_export.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_tools_export.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,26 @@ + + + - Export data from a QIIME 2 Artifact or Visualization. + + qiime2 + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_tools_export_collection.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_tools_export_collection.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,18 @@ + + + - Export data from a QIIME 2 Artifact or Visualization. + + qiime2 + + + + + + + + + + + + + \ No newline at end of file diff -r 000000000000 -r 09b7bcb72fa7 qiime_tools_export_paired_collection.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_tools_export_paired_collection.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,18 @@ + + + - Export data from a QIIME 2 Artifact or Visualization. + + qiime2 + + + + + + + + + + + + + \ No newline at end of file diff -r 000000000000 -r 09b7bcb72fa7 qiime_tools_import.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_tools_import.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,253 @@ + + + - Import data into a new QIIME 2 Artifact. + + qiime2 + + $file_for_processing; + #else + #set $file_for_processing = 'input/' + $f.name + ln -s ${f} $file_for_processing; + #end if + #end for + #if 'SingleEndFastqManifestPhred' in str($sourceformat): + #set $cwd = str($outputpath.extra_files_path) + "_manifest_file.txt" + #set $m_file = open(str($cwd), 'w') + $m_file.write("sample-id,absolute-filepath,direction\n") + #for $f in $input_type.list_list: + $m_file.write(str($f.name).split("_")[0]+",$PWD/input/"+str($f.name)+".gz,forward\n") + #end for + $m_file.close() + #set $in_= str($cwd) + #end if + + +#elif $input_type.type == 'list_paired_collection': + + #set $cwd = str($outputpath.extra_files_path) + "_manifest_file.txt" + #set $m_file = open(str($cwd), 'w') + $m_file.write("sample-id,absolute-filepath,direction\n") + + #for $pair in $input_type.list_paired_collection: + #set $forward_is_fastq_file = $is_fastq(str($pair.forward)) + #set $reverse_is_fastq_file = $is_fastq(str($pair.reverse)) + + #if $forward_is_fastq_file: + gzip -c ${pair.forward} > input/${pair.name}_R1_001.fastq.gz; + $m_file.write(str($pair.name).split("_")[0]+",$PWD/input/"+str($pair.name)+"_R1_001.fastq.gz,forward\n") + #else + ln -s ${pair.forward} input/${pair.name}_R1_001.fastq.gz; + $m_file.write(str($pair.name).split("_")[0]+",$PWD/input/"+str($pair.name)+"_R1_001.fastq.gz,forward\n") + #end if + + #if $reverse_is_fastq_file: + gzip -c ${pair.reverse} > input/${pair.name}_R2_001.fastq.gz; + $m_file.write(str($pair.name).split("_")[0]+",$PWD/input/"+str($pair.name)+"_R2_001.fastq.gz,reverse\n") + #else + ln -s ${pair.reverse} input/${pair.name}_R2_001.fastq.gz; + $m_file.write(str($pair.name).split("_")[0]+",$PWD/input/"+str($pair.name)+"_R2_001.fastq.gz,reverse\n") + #end if + #end for + + + $m_file.close() + #if 'PairedEndFastqManifestPhred' in str($sourceformat): + #set $in_= str($cwd) + #elif 'Casava' in str($sourceformat): + #set $in_= 'input' + #end if + +#else + #set $res = $is_fastq(str($file)) + + #if $res + gzip -c ${file} > ${file.name}.gz; + #set $in_= $file.name + '.gz' + + #else + #set $in_= str($file) + #end if + + #if "MultiplexedSingleEndBarcodeInSequence" in str($semantic_type): + mv *_R1_* forward.fastq.gz; + #set $in_= 'forward.fastq.gz'; + #end if + +#end if + + +## rename files to predefined names for "MultiplexedPairedEndBarcodeInSequence" +#if "MultiplexedPairedEndBarcodeInSequence" in str($semantic_type): + mv input/*_R1_* input/forward.fastq.gz; + mv input/*_R2_* input/reverse.fastq.gz; +#end if + + +qiime tools import + +--type="$semantic_type" + +--input-path=$in_ + +--output-path=outputpath + +#if str($sourceformat) != 'None': + #if '__ob__' in str($sourceformat): + #set $sourceformat_temp = str($sourceformat).replace('__ob__', '[') + #set $sourceformat_temp = str($sourceformat_temp).replace('__cb__', ']') + #set $sourceformat = $sourceformat_temp + #end if + --source-format="$sourceformat" +#end if +; +cp outputpath.qza $outputpath]]> + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_cluster-features-closed-reference.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_cluster-features-closed-reference.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,97 @@ + + + - Closed-reference clustering of features. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_cluster-features-de-novo.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_cluster-features-de-novo.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,74 @@ + + + - De novo clustering of features. + + qiime2 + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_cluster-features-open-reference.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_cluster-features-open-reference.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,107 @@ + + + - Open-reference clustering of features. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_dereplicate-sequences.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_dereplicate-sequences.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,53 @@ + + + - Dereplicate sequences. + + qiime2 + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_join-pairs.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_join-pairs.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,152 @@ + + + - Join paired-end reads. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_uchime-denovo.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_uchime-denovo.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,99 @@ + + + - De novo chimera filtering with vsearch. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + diff -r 000000000000 -r 09b7bcb72fa7 qiime_vsearch_uchime-ref.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime_vsearch_uchime-ref.xml Thu May 24 02:11:44 2018 -0400 @@ -0,0 +1,109 @@ + + + - Reference-based chimera filtering with vsearch. + + qiime2 + + + + + + + + + + + + + + + + + + + + + + + + + + + +