Mercurial > repos > iuc > schicexplorer_schicmergematrixbins
diff scHicMergeMatrixBins.xml @ 0:18ac7f83ae0e draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
| author | iuc |
|---|---|
| date | Thu, 23 Jan 2020 16:03:51 -0500 |
| parents | |
| children | ecae4e42d40a |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scHicMergeMatrixBins.xml Thu Jan 23 16:03:51 2020 -0500 @@ -0,0 +1,367 @@ +<tool id="schicexplorer_schicmergematrixbins" name="@BINARY@" version="@WRAPPER_VERSION@.0"> + <description>change the resolution of the scHi-C matrices</description> + <macros> + <token name="@BINARY@">scHicMergeMatrixBins</token> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="exit_code"><![CDATA[ + @BINARY@ + + --matrix '$matrix_mcooler' + --numBins $numberOfBins + + #if $runningWindow: + $runningWindow + #end if + + --outFileName merged_matrices.mcool + + --threads @THREADS@ + + + + ]]></command> + <inputs> + + <expand macro="matrix_mcooler_macro"/> + <param name="numberOfBins" type="integer" value="10" label="Number of bins to merge" help='Number of bins to merge to achieve the desired resolution. For example: To merge a 10kb matrix to 1MB, 10kb * 100 = 1MB i.e. the value needs to be 100.' /> + <param name='runningWindow' type='boolean' truevalue='--runningWindow' label='Running window' help='Set to merge for using a running window of length --numBins. Must be an odd number.'/> + + </inputs> + <outputs> + <data name="outFileName" from_work_dir="merged_matrices.mcool" format="mcool" label="${tool.name} on ${on_string}: Adjusted matrix"/> + </outputs> + <tests> + <test> + <param name='matrix_mcooler' value='test_matrix.mcool' /> + <param name='numberOfBins' value='10' /> + <output name="outFileName" ftype="mcool"> + <assert_contents> + <has_h5_keys keys='Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins/chrom, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins/end, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins/start, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/chroms, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/chroms/length, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/chroms/name, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/indexes, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/indexes/bin1_offset, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/indexes/chrom_offset, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels/bin1_id, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels/bin2_id, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels/count, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins/end, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/chroms, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/indexes, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins/chrom, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins/end, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins/start, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/chroms, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/chroms/length, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/chroms/name, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/indexes, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/indexes/bin1_offset, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/indexes/chrom_offset, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels/bin1_id, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels/bin2_id, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels/count, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins/end, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/chroms, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/indexes, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins/chrom, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins/end, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins/start, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/chroms, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/chroms/length, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/chroms/name, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/indexes, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/indexes/bin1_offset, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/indexes/chrom_offset, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels/bin1_id, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels/bin2_id, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels/count, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins/end, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/chroms, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/indexes, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins/end, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/chroms, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/indexes, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins/end, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/chroms, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/indexes, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels/count, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins/chrom, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins/end, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins/start, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/chroms, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/chroms/length, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/chroms/name, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/indexes, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/indexes/bin1_offset, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/indexes/chrom_offset, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels/bin1_id, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels/bin2_id, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels/count, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins/chrom, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins/end, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins/start, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/chroms, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/chroms/length, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/chroms/name, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/indexes, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/indexes/bin1_offset, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/indexes/chrom_offset, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels/bin1_id, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels/bin2_id, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels/count, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins/chrom, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins/end, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins/start, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/chroms, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/chroms/length, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/chroms/name, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/indexes, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/indexes/bin1_offset, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/indexes/chrom_offset, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels/bin1_id, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels/bin2_id, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/indexes, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/chroms, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/indexes, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/chroms, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/indexes, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/chroms, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/indexes, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/chroms, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels/count, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins/chrom, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins/end, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins/start, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/chroms, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/chroms/length, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/chroms/name, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/indexes, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/indexes/bin1_offset, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/indexes/chrom_offset, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels/bin1_id, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels/bin2_id, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels/count'/> + </assert_contents> + </output> + </test> + <test> + <param name='matrix_mcooler' value='test_matrix.mcool' /> + <param name='numberOfBins' value='11' /> + <param name='runningWindow' value='true' /> + + <output name="outFileName" ftype="mcool"> + <assert_contents> + <has_h5_keys keys='Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins/chrom, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins/end, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/bins/start, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/chroms, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/chroms/length, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/chroms/name, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/indexes, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/indexes/bin1_offset, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/indexes/chrom_offset, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels/bin1_id, Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels/bin2_id, + Diploid_1_CGTACTAG_AAGGAGTA_R1fastqgz/pixels/count, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins/end, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/chroms, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/indexes, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_ACTGCATA_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins/chrom, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins/end, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/bins/start, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/chroms, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/chroms/length, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/chroms/name, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/indexes, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/indexes/bin1_offset, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/indexes/chrom_offset, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels/bin1_id, Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels/bin2_id, + Diploid_1_CGTACTAG_CGTCTAAT_R1fastqgz/pixels/count, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins/end, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/chroms, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/indexes, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_CTAAGCCT_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins/chrom, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins/end, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/bins/start, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/chroms, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/chroms/length, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/chroms/name, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/indexes, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/indexes/bin1_offset, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/indexes/chrom_offset, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels/bin1_id, Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels/bin2_id, + Diploid_1_CGTACTAG_CTCTCTAT_R1fastqgz/pixels/count, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins/end, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/chroms, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/indexes, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_GTAAGGAG_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins/end, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/chroms, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/indexes, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_TATCCTCT_R1fastqgz/pixels/count, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins/chrom, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins/end, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/bins/start, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/chroms, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/chroms/length, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/chroms/name, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/indexes, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/indexes/bin1_offset, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/indexes/chrom_offset, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels/bin1_id, + Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels/bin2_id, Diploid_1_CGTACTAG_TCTCTCCG_R1fastqgz/pixels/count, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins/chrom, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins/end, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/bins/start, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/chroms, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/chroms/length, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/chroms/name, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/indexes, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/indexes/bin1_offset, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/indexes/chrom_offset, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels/bin1_id, + Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels/bin2_id, Diploid_1_TAAGGCGA_AAGGAGTA_R1fastqgz/pixels/count, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins/chrom, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins/end, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/bins/start, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/chroms, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/chroms/length, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/chroms/name, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/indexes, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/indexes/bin1_offset, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/indexes/chrom_offset, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels/bin1_id, Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels/bin2_id, + Diploid_1_TAAGGCGA_CGTCTAAT_R1fastqgz/pixels/count, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins/chrom, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins/end, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/bins/start, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/chroms, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/chroms/length, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/chroms/name, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/indexes, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/indexes/bin1_offset, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/indexes/chrom_offset, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels/bin1_id, + Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels/bin2_id, Diploid_1_TAAGGCGA_CTAAGCCT_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/indexes, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_AAGGAGTA_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/chroms, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_ACTGCATA_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/indexes, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_CGTCTAAT_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/chroms, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_CTAAGCCT_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/indexes, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_CTCTCTAT_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/chroms, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_GTAAGGAG_R1fastqgz/pixels/count, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins/chrom, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins/end, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/bins/start, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/chroms, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/chroms/length, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/chroms/name, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/indexes, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/indexes/bin1_offset, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/indexes/chrom_offset, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels/bin1_id, Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels/bin2_id, + Diploid_2_AAGAGGCA_TATCCTCT_R1fastqgz/pixels/count, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins/chrom, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins/end, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/bins/start, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/chroms, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/chroms/length, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/chroms/name, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/indexes, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/indexes/bin1_offset, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/indexes/chrom_offset, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels/bin1_id, + Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels/bin2_id, Diploid_2_AAGAGGCA_TCTCTCCG_R1fastqgz/pixels/count, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins/chrom, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins/end, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/bins/start, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/chroms, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/chroms/length, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/chroms/name, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/indexes, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/indexes/bin1_offset, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/indexes/chrom_offset, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels/bin1_id, Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels/bin2_id, + Diploid_2_AGGCAGAA_AAGGAGTA_R1fastqgz/pixels/count'/> + </assert_contents> + </output> + </test> + </tests> + <help><![CDATA[ + +Change the resolution of the scHi-C matrices +============================================ + +Merges bins from a Hi-C matrix. For example, using a matrix containing 5kb bins, a matrix of 50kb bins can be derived using --numBins 10. + + +For more information about scHiCExplorer please consider our documentation on readthedocs.io_ + +.. _readthedocs.io: http://schicexplorer.readthedocs.io/ +]]></help> + <expand macro="citations" /> + +</tool>