Mercurial > repos > iuc > schicexplorer_schicconsensusmatrices

annotate test-data/scHicQualityControl/qc_report.txt @ 0:49e3fe550e7e draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
author iuc
date Thu, 23 Jan 2020 15:58:55 -0500
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children 18bdb745b787
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49e3fe550e7e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
iuc
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1 # QC report for single-cell Hi-C data generated by scHiCExplorer 1-dev
49e3fe550e7e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
iuc
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2 scHi-C sample contained 20 cells:
49e3fe550e7e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
iuc
parents:
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3 Number of removed matrices containing bad chromosomes 0
49e3fe550e7e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
iuc
parents:
diff changeset
4 Number of removed matrices due to low read coverage (< 100000): 8
49e3fe550e7e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
iuc
parents:
diff changeset
5 Number of removed matrices due to too many zero bins (< 0.001 density, within 30000000 relative genomic distance): 0
49e3fe550e7e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 2a80f777c0221752232882c0d43b55f2b1dcd223"
iuc
parents:
diff changeset
6 12 samples passed the quality control. Please consider matrices with a low read coverage may be the matrices with a low density and overlap therefore.