Question: How to merge multiple bam files into single bam file
0
gravatar for nabiyogesh
11 days ago by
nabiyogesh30
nabiyogesh30 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 • 116 views
ADD COMMENTlink modified 11 days ago by finswimmer7770 • written 11 days ago by nabiyogesh30

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 11 days ago by WouterDeCoster14k
3
gravatar for finswimmer77
11 days ago by
finswimmer7770
finswimmer7770 wrote:

Hello,

samtools merge can do this.

fin swimmer

ADD COMMENTlink written 11 days ago by finswimmer7770

Thank you very much!

ADD REPLYlink written 11 days ago by nabiyogesh30

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

ADD REPLYlink written 11 days ago by WouterDeCoster14k

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 days ago by nabiyogesh30

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 9 days ago by WouterDeCoster14k
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