Question: Indexing large chromosomes (like wheat) bam files in Rsamtools
0
gravatar for saripalligautam86
6 months ago by
saripalligautam8610 wrote:

Hello all,

 

Is there a possible way to index bam files for large chromosomes(like wheat) using Rsamtools? Like in case of samtools using linux, .CSI (coordinate sorted index) is possible whereby .bam files for large chromosomes can be indexed. However, the .CSI index generated using samtools (through linux) is not compatible with MEDIPS or QSEA packages which are used to calculate CpG densities for MeDIP-Seq data.

 

Regards, 

rsamtools medips qsea • 113 views
ADD COMMENTlink written 6 months ago by saripalligautam8610
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 122 users visited in the last hour