view test-data/test_tool_usage @ 5:4f7e6612906b draft

"planemo upload for repository https://github.com/bgruening/galaxytools/tree/recommendation_training/tools/tool_recommendation_model commit 5eebc0cb44e71f581d548b7e842002705dd155eb"
author bgruening
date Fri, 06 May 2022 09:05:18 +0000
parents 5b3c08710e47
children e94dc7945639
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 toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.6                                                                                 	2022-02-01	50054
 upload1                                                                                                                                             	2022-02-01	43169
 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_find_and_replace/1.1.3                                                                    	2022-02-01	39139
 Cut1                                                                                                                                                	2022-02-01	29046
 toolshed.g2.bx.psu.edu/repos/iuc/snpsift/snpSift_extractFields/4.3+t.galaxy0                                                                        	2022-02-01	27481
 toolshed.g2.bx.psu.edu/repos/iuc/featurecounts/featurecounts/2.0.1+galaxy2                                                                          	2022-02-01	17579
 toolshed.g2.bx.psu.edu/repos/bgruening/align_it/ctb_alignit/1.0.4+galaxy0                                                                           	2022-02-01	15902
 toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.73+galaxy0                                                                                     	2022-02-01	14479
 toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.5+galaxy1                                                                              	2022-02-01	13513
 toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.7.8a+galaxy0                                                                                  	2022-02-01	13197
 toolshed.g2.bx.psu.edu/repos/iuc/bcftools_annotate/bcftools_annotate/1.10                                                                           	2022-02-01	13176
 toolshed.g2.bx.psu.edu/repos/iuc/lofreq_filter/lofreq_filter/2.1.5+galaxy0                                                                          	2022-02-01	12931
 Filter1                                                                                                                                             	2022-02-01	12490
 __UNZIP_COLLECTION__                                                                                                                                	2022-02-01	12042
 toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/1.1.0                                                                                    	2022-02-01	11810
 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_line/1.1.2                                                                     	2022-02-01	11502
 toolshed.g2.bx.psu.edu/repos/devteam/vcfvcfintersect/vcfvcfintersect/1.0.0_rc3+galaxy0                                                              	2022-02-01	11487
 toolshed.g2.bx.psu.edu/repos/devteam/samtools_stats/samtools_stats/2.0.2+galaxy2                                                                    	2022-02-01	10705
 toolshed.g2.bx.psu.edu/repos/iuc/snpeff_sars_cov_2/snpeff_sars_cov_2/4.5covid19                                                                     	2022-02-01	10569
 toolshed.g2.bx.psu.edu/repos/iuc/lofreq_indelqual/lofreq_indelqual/2.1.5+galaxy0                                                                    	2022-02-01	10545
 toolshed.g2.bx.psu.edu/repos/iuc/lofreq_viterbi/lofreq_viterbi/2.1.5+galaxy0                                                                        	2022-02-01	10543
 toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.9+galaxy2                                                                            	2022-02-01	10456
 toolshed.g2.bx.psu.edu/repos/bgruening/replace_column_by_key_value_file/replace_column_with_key_value_file/0.2                                      	2022-02-01	9307
 toolshed.g2.bx.psu.edu/repos/iuc/qualimap_bamqc/qualimap_bamqc/2.2.2d+galaxy3                                                                       	2022-02-01	9275
 toolshed.g2.bx.psu.edu/repos/devteam/concat/gops_concat_1/1.0.1                                                                                     	2022-02-01	9066
 toolshed.g2.bx.psu.edu/repos/devteam/subtract/gops_subtract_1/1.0.0                                                                                 	2022-02-01	9055
 toolshed.g2.bx.psu.edu/repos/devteam/merge/gops_merge_1/1.0.0                                                                                       	2022-02-01	9038
 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_genomecoveragebed/2.29.2                                                                         	2022-02-01	9036
 toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1                                                                                     	2022-02-01	9001
 toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa_mem/0.7.17.2                                                                                           	2022-02-01	7639
 toolshed.g2.bx.psu.edu/repos/iuc/bcftools_consensus/bcftools_consensus/1.10+galaxy1                                                                 	2022-02-01	7325
 toolshed.g2.bx.psu.edu/repos/iuc/abricate/abricate/1.0.1                                                                                            	2022-02-01	7256
 toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_reheader/0.1.8_1                                                                              	2022-02-01	7238
 toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.23.2+galaxy0                                                                                         	2022-02-01	7178
 toolshed.g2.bx.psu.edu/repos/iuc/ivar_trim/ivar_trim/1.3.1+galaxy2                                                                                  	2022-02-01	6751
 __FILTER_FAILED_DATASETS__                                                                                                                          	2022-02-01	6565
 toolshed.g2.bx.psu.edu/repos/iuc/kraken2/kraken2/2.1.1+galaxy1                                                                                      	2022-02-01	6529
 toolshed.g2.bx.psu.edu/repos/iuc/ivar_removereads/ivar_removereads/1.3.1+galaxy2                                                                    	2022-02-01	6479
 toolshed.g2.bx.psu.edu/repos/iuc/lofreq_call/lofreq_call/2.1.5+galaxy0                                                                              	2022-02-01	6397
 toolshed.g2.bx.psu.edu/repos/iuc/table_compute/table_compute/1.2.4+galaxy0                                                                          	2022-02-01	4890
 toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/trimmomatic/0.38.1                                                                                	2022-02-01	4702
 toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.20.1+galaxy0                                                                                         	2022-02-01	4646
 toolshed.g2.bx.psu.edu/repos/iuc/purge_dups/purge_dups/1.2.5+galaxy4                                                                                	2022-02-01	4429
 toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa_mem/0.7.17.1                                                                                           	2022-02-01	4240
 toolshed.g2.bx.psu.edu/repos/iuc/rna_starsolo/rna_starsolo/2.7.8a                                                                                   	2022-02-01	4099
 toolshed.g2.bx.psu.edu/repos/iuc/filter_tabular/filter_tabular/2.0.0                                                                                	2022-02-01	3694
 __DATA_FETCH__                                                                                                                                      	2022-02-01	3686
 toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.24+galaxy0                                                                                     	2022-02-01	3234
 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.30.0+galaxy2                                                                          	2022-02-01	2936
 toolshed.g2.bx.psu.edu/repos/iuc/anndata_import/anndata_import/0.7.5+galaxy0                                                                        	2022-02-01	2814
 toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/2.2.1+galaxy0                                                                                        	2022-02-01	2759
 toolshed.g2.bx.psu.edu/repos/iuc/ivar_trim/ivar_trim/1.3.1+galaxy0                                                                                  	2022-02-01	2442
 toolshed.g2.bx.psu.edu/repos/iuc/ivar_removereads/ivar_removereads/1.3.1+galaxy0                                                                    	2022-02-01	2389
 CONVERTER_gz_to_uncompressed                                                                                                                        	2022-02-01	2340
 Grouping1                                                                                                                                           	2022-02-01	2333
 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_intersectbed/2.30.0                                                                              	2022-02-01	2288
 sort1                                                                                                                                               	2022-02-01	1937
 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/3.12.0+galaxy1                                                                                       	2022-02-01	1837
 toolshed.g2.bx.psu.edu/repos/iuc/bcftools_consensus/bcftools_consensus/1.10                                                                         	2022-02-01	1793
 toolshed.g2.bx.psu.edu/repos/iuc/plasflow/PlasFlow/1.0                                                                                              	2022-02-01	1782
 toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_image/0.8.1+galaxy2                                                                                	2022-02-01	1769
 toolshed.g2.bx.psu.edu/repos/crs4/prokka/prokka/1.14.6+galaxy1                                                                                      	2022-02-01	1718
 toolshed.g2.bx.psu.edu/repos/iuc/datamash_transpose/datamash_transpose/1.1.0                                                                        	2022-02-01	1446
 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.2                                                                          	2022-02-01	1435
 toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/2.1.7+galaxy1                                                                                  	2022-02-01	1432
 toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.6.7+galaxy0                                                                        	2022-02-01	1360
 toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/2.0                                                                                        	2022-02-01	1291
 __SET_METADATA__                                                                                                                                    	2022-02-01	1260
 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_coverage/deeptools_bam_coverage/3.3.2.0.0                                                      	2022-02-01	1036
 toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.3.0                                                                               	2022-02-01	1019
 toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy0                                                                                       	2022-02-01	973
 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/0.1.1                                                                                 	2022-02-01	962
 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.11.0+galaxy1                                                                              	2022-02-01	926
 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_compute_matrix/deeptools_compute_matrix/3.3.2.0.0                                                  	2022-02-01	915
 toolshed.g2.bx.psu.edu/repos/devteam/fastq_groomer/fastq_groomer/1.1.5                                                                              	2022-02-01	907
 toolshed.g2.bx.psu.edu/repos/iuc/obi_illumina_pairend/obi_illumina_pairend/1.2.13                                                                   	2022-02-01	897
 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_infer_experiment/2.6.4.1                                                                            	2022-02-01	879
 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.4.5+galaxy0                                                                                  	2022-02-01	871
 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.4.2+galaxy0                                                                                  	2022-02-01	862
 cat1                                                                                                                                                	2022-02-01	795
 toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/3.5+galaxy1                                                                                 	2022-02-01	772
 toolshed.g2.bx.psu.edu/repos/peterjc/blast_rbh/blast_reciprocal_best_hits/0.1.11                                                                    	2022-02-01	766
 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_heatmap/deeptools_plot_heatmap/3.3.2.0.1                                                      	2022-02-01	758
 toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.1                                                                          	2022-02-01	705
 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.1.1.20160309.6                                                                              	2022-02-01	652
 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy0                                                             	2022-02-01	648
 toolshed.g2.bx.psu.edu/repos/peterjc/seq_filter_by_mapping/seq_filter_by_mapping/0.0.6                                                              	2022-02-01	614
 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.40.7+galaxy1                                                                                    	2022-02-01	606
 toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1                                                                        	2022-02-01	588
 join1                                                                                                                                               	2022-02-01	584
 toolshed.g2.bx.psu.edu/repos/devteam/fastqtofasta/fastq_to_fasta_python/1.1.5                                                                       	2022-02-01	580
 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_profile/deeptools_plot_profile/3.3.2.0.0                                                      	2022-02-01	555
 toolshed.g2.bx.psu.edu/repos/lparsons/htseq_count/htseq_count/0.9.1+galaxy1                                                                         	2022-02-01	544