Difference between Alignment quality and Mapping quality
I want to ask is there any difference between alignment quality and mapping quality of BAM file ??
• 9,195 views
•
link
updated
by
jh.monin •
•
written
by
ammarsabir15
•
written
by
ammarsabir15
1 answer
Alignment score is the quality of of matching between the read-sequence and reference-sequence. Mapping quality is the confidence that the read is correctly mapped to the genomic coordinates. For example, a read may be mapped to several genomic locations with almost a perfect match in all locations. In that case, alignment score will be high but mapping quality will be low.
• 0 views
•
link
written
by
jh.monin •
Log in to answer this question.
More posts like this
-
BAM creation - vg surject vs vg mpmap output
written by AshleeThomson •
-
Alignment report
written by shivangi.agarwal800
-
qualimap2 mean mapping quality
written by 13751039463 •
-
What is the difference between genome fasta file from ENSEMBL and UCSC
written by SMILE
-
what's the difference between picard MergeBamAlignment and samtools merge
written by Yingzi Zhang
-
Pre_processing BAM file for variant calling using RNA-seq data
written by ammarsabir15
-
SomaticSniper: Depth of reads supporting variant(s) in normal =0
written by thestaroceanster •
-
Filter low quality reads in bam files
written by ammarsabir15
-
Error Filtering BAM file based on mapping qualities in python's pysam
written by ammarsabir15
-
MAPping Quality v.s. Alignment Score (AS) in SAM format
written by xiangwulu •
