Mercurial > repos > bgruening > hicexplorer_chicdifferentialtest

view test-data/raw_qc_report @ 6:975b6a67e4b0 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 2a0943e78bdc8ebb13f181399206a9eea37ed78f"
author iuc
date Tue, 16 Mar 2021 15:16:02 +0000
parents fa6fc09ba259
children 9d42a6133690
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File	matrix.h5		
Sequenced reads	983		
Min rest. site distance	300		
Max library insert size	1000		

#	count	(percentage w.r.t. total sequenced reads)
Pairs mappable, unique and high quality	300	(30.52)
Hi-C contacts	215	(21.87)
One mate unmapped	506	(51.48)
One mate not unique	13	(1.32)
Low mapping quality	164	(16.68)

#	count	(percentage w.r.t. mappable, unique and high quality pairs)
dangling end GATC	1	(0.33)
self ligation (removed)	0	(0.00)
One mate not close to rest site	0	(0.00)
same fragment	84	(28.00)
self circle	33	(11.00)
duplicated pairs	0	(0.00)

#	count	(percentage w.r.t. total valid pairs used)
inter chromosomal	24	(11.16)
Intra short range (< 20kb)	61	(28.37)
Intra long range (>= 20kb)	130	(60.47)
Read pair type: inward pairs	42	(19.53)
Read pair type: outward pairs	66	(30.70)
Read pair type: left pairs	48	(22.33)
Read pair type: right pairs	35	(16.28)