Question: How to merge multiple bam files into single bam file
0
gravatar for nabiyogesh
10 weeks ago by
nabiyogesh50
South Korea
nabiyogesh50 wrote:

I mapped 30 pair end reads file separately to the genome. now please suggest how to merge these 30 mapped bam files to generate single bam file to do genome guided assembly.

rna-seq • 212 views
ADD COMMENTlink modified 10 weeks ago by finswimmer77130 • written 10 weeks ago by nabiyogesh50

This question could have been solved easily by a quick google search e.g. searching for 'merge bam files'. Please first try to find a solution on your own before asking questions.

ADD REPLYlink written 10 weeks ago by WouterDeCoster17k
3
gravatar for finswimmer77
10 weeks ago by
finswimmer77130
finswimmer77130 wrote:

Hello,

samtools merge can do this.

fin swimmer

ADD COMMENTlink written 10 weeks ago by finswimmer77130

Thank you very much!

ADD REPLYlink written 10 weeks ago by nabiyogesh50

If this answer resolved your question you should mark it as "accepted".

ADD REPLYlink written 10 weeks ago by WouterDeCoster17k

After merging all bam file into single bam file using smatools merge. Do I also sort the merge bam file to do genome guided assembly using StingTie?

ADD REPLYlink written 10 weeks ago by nabiyogesh50

This question could have been solved easily by reading the samtools specifications. Searching google for 'samtools merge' brought me on this page on which the answer is rapidly found in the paragraph discussing samtools merge. Please first try to find a solution on your own before asking questions.

ADD REPLYlink written 10 weeks ago by WouterDeCoster17k
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