Calculate the coverage of genes
Hi,everyone , There I want to calculate the RNAseq reads coverage the numbers of genes and sequences from reference genome and I have bam files ,did anyone knows how to calculate it ? Thanks Alex
• 2,222 views
•
link
updated
by
Devon Ryan
•
written
by
Alex •
•
written
by
Alex •
1 answer
It's a bit hard to understand exactly what you want, but I assume you mean you want to find the number of alignments per gene. For that, use featureCounts from the subRead package.
• 0 views
•
link
written
by
Devon Ryan
Log in to answer this question.
More posts like this
-
Tools for Subsampling Paired-End Reads to 25X Coverage ?
written by Sony Nguyen •
-
Calculating coverage/depth for nanopore dRNAseq reads with reference transcriptome/genome
written by kenneditodd •
-
Calculate coverage per gene
written by anii •
-
Coverage of target genes
written by gubrins
-
How to calculate per base coverage from the .bam file?
written by PK •
-
mapping unmapped reads to viral genome using blast+
written by Shaway •
-
Calculate the coverage between two bed files using bedtools
written by Alex •
-
reads distribution from the reference
written by Alex •
-
The coverage of intergenic regions is so high in the processing of bacterial RNA-seq reads mapping …
written by tanxiaojuan1111 •
-
How to visualise RNAseq baits in a genomic context
written by Duarte Molha
