Mercurial > repos > iuc > schicexplorer_schiccorrectmatrices

annotate test-data/scHicQualityControl/qc_report_chr1_chr2.txt @ 2:295558e266d0 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 14:21:12 +0000
parents 104bedd292cd
children
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104bedd292cd "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 0536fdef4cfc6315a0730b55f766e31d1986bedb"
iuc
parents:
diff changeset
1 # QC report for single-cell Hi-C data generated by scHiCExplorer 1-dev
104bedd292cd "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 0536fdef4cfc6315a0730b55f766e31d1986bedb"
iuc
parents:
diff changeset
2 scHi-C sample contained 20 cells:
104bedd292cd "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 0536fdef4cfc6315a0730b55f766e31d1986bedb"
iuc
parents:
diff changeset
3 Number of removed matrices containing bad chromosomes 0
104bedd292cd "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 0536fdef4cfc6315a0730b55f766e31d1986bedb"
iuc
parents:
diff changeset
4 Number of removed matrices due to low read coverage (< 100000): 8
104bedd292cd "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 0536fdef4cfc6315a0730b55f766e31d1986bedb"
iuc
parents:
diff changeset
5 Number of removed matrices due to too many zero bins (< 0.001 density, within 30000000 relative genomic distance): 0
104bedd292cd "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/schicexplorer commit 0536fdef4cfc6315a0730b55f766e31d1986bedb"
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.