More posts like this
-
To extract uniques SNPs froma. multisample VCF file
written by sam •
-
What is the common practice to view WGS data on IGV?
written by chictu •
-
Cap base quality in bam file
written by junnna •
-
Is it possible to remove reads from BAM which match the reference at a position
written by yryan •
-
How to introduce artificial mutation in bam
written by bassanio •
-
Edit bam files using Pysam
written by zaidnab •
-
Base call from BAM file
written by Simo •
-
bam-readcount skips genomic positions contained in the bedfile
written by jml96 •
-
find similar sequences between different sources
written by sam •
-
Bam File: Change Chromosome Notation
written by Lisanne •
why ? what are you trying to do ?
I have short-read data for a cultivar and want to generate assembly for the genic region based on a reference genome. Apart from the uniquely mapped reads, I am also using filtered multi-mapped reads (to improve coverage) with a certain number of mutations in these reads. However, I want to substitute the mismatched base in the muti-mapped read against reference to 'N'.