Mercurial > repos > iuc > schicexplorer_schicmergetoscool

annotate test-data/scHicQualityControl/qc_report.txt @ 1:70a13d0a950f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit d350f8e73ae518245a21f9720f8282f06eb9cc5d
author iuc
date Fri, 14 Apr 2023 14:28:15 +0000
parents 6ffcffed0225
children
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6ffcffed0225 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 72e1e90ac05a32dbd6fc675073429c0086048b18"
iuc
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1 # QC report for single-cell Hi-C data generated by scHiCExplorer 4
6ffcffed0225 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 72e1e90ac05a32dbd6fc675073429c0086048b18"
iuc
parents:
diff changeset
2 scHi-C sample contained 20 cells:
6ffcffed0225 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 72e1e90ac05a32dbd6fc675073429c0086048b18"
iuc
parents:
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3 Number of removed matrices containing bad chromosomes 0
6ffcffed0225 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 72e1e90ac05a32dbd6fc675073429c0086048b18"
iuc
parents:
diff changeset
4 Number of removed matrices due to low read coverage (< 100000): 10
6ffcffed0225 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 72e1e90ac05a32dbd6fc675073429c0086048b18"
iuc
parents:
diff changeset
5 Number of removed matrices due to too many zero bins (< 0.001 density, within 30000000 relative genomic distance): 0
6ffcffed0225 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 72e1e90ac05a32dbd6fc675073429c0086048b18"
iuc
parents:
diff changeset
6 10 samples passed the quality control. Please consider matrices with a low read coverage may be the matrices with a low density and overlap therefore.