decide a threshold to filter samples based on HsMetrics from Picard tools
Hi all!
This is just a comment to debate. Are there any criteria to decide a threshold to filter samples based on HsMetrics from Picard tools? Data came from Whole Exome Seq. How and why we could establish a threshold? The variables are:
% of SELECTED BASES
% of TARGET BASES AT 30X
MEAN TARGET COVERAGE
Thank you all!!
Papers/Literature will be highly appreciated
• 701 views
•
link
written
by
bio.pelayo •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
understanding exercise on file coverage
written by alexmondaini •
-
Any Tools to calculate specific gene coverage from BAM file?
written by koay •
-
UK biobank exome filtering
written by Floris Brenk
-
Confusing Picard HsMetrics ON_BAIT_VS_SELECTED for near=250 and near=0
written by Floydian_slip
-
Post-filtering WES for mutation calling
written by graeme.thorn
-
panel specific general statistics
written by simo017 •
-
What kind of filtering can be applied to reduce my exonic variants?
written by bioinforesearchquestions
-
QC for Whole Exome Sequence Data
written by haiying.kong
-
Optimum on-target coverage for exome-sequencing
written by hellbio
-
What Is Considered A Good Coverage Depth In Exon Capture Seq
written by CrazyB
