From 4d0c15833fffd86fa4a53c8be41cc2cdcd4d5763 Mon Sep 17 00:00:00 2001 From: jonas-fuchs Date: Fri, 3 Nov 2023 11:23:55 +0100 Subject: [PATCH] updated readme --- README.md | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index 3d56c58..df9521a 100644 --- a/README.md +++ b/README.md @@ -34,7 +34,8 @@ BAMdash automatically computes serveral statistics: - for each track it computes recovery and mean coverage (set `-c` for the min coverage) for each element in the track - if a `*.vcf` is provided it annotates `TRANSITION`/`TRANSVERSION` and type of exchange (`SNP`, `DEL`, `INS`) -If a `*.gb`and `*.vcf` is provided BAMdash computes the aminoacid exchange and the effect in the CDS (inspired by but not as powerful as [snpeff](http://pcingola.github.io/SnpEff/snpeff)). SNP and INDEL vcf annotation supports: +If a `*.gb`and `*.vcf` is provided BAMdash computes if the mutations could have been caused by APOBEC deamination. +Moreover, it annotates the aminoacid exchange and the effect in the CDS (inspired by but not as powerful as [snpeff](http://pcingola.github.io/SnpEff/snpeff)). SNP and INDEL vcf annotation supports: - `START_LOST`: INDEL or SNP start at the CDS and result in a start loss - `STOP_LOST`: INDEL or SNP result in the loss of the stop codon