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linxingchen / cobra

A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.
MIT License
62 stars 10 forks source link

multiple bam files #14

Closed DOieGYuan closed 9 months ago

DOieGYuan commented 9 months ago

Hi Dr. Chen

Thank you for introducing this awesome tool! What should I do if I have multiple bam files for the assembly built from multiple samples? Thanks!

linxingchen commented 9 months ago

Hi, thank you for your interest in COBRA.

You could create only one bam file when mapping the reads, mapping tools could let you input several read sets from multiple samples.

Or, you could merge reads first then do the mapping to obtain only one bam file.

I hope this helps. Keep in mind that your contigs should be from a single assembly.

Best, LinXing

LinXing Chen, Ph.D. Associated Project Scientist, The Banfield Lab, University of California, Berkeley, USA 94706 Phone: (1)510-701-7864 Email: @.***

2024年2月7日 -0800 PM11:16 DOieGYuan @.***>，写道：

Hi Dr. Chen Thank you for introducing this awesome tool! What should I do if I have multiple bam files for the assembly built from multiple samples? Thanks! — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.Message ID: @.***>

DOieGYuan commented 9 months ago

Thank you for your quick reply!