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Question: Filter BAM file by size
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gravatar for aparicio2457
7 months ago by
aparicio2457 • 0
USA - Alexandria VA
aparicio2457 • 0 wrote:

I'm attempting to restrict the BAM file using the Filter tool to a size less than 100,000 bp. How do I set up the Filter?
picard samtools filter bam • 319 views
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modified 7 months ago by Jennifer Hillman Jackson ♦ 25k • written 7 months ago by aparicio2457 • 0
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gravatar for Jennifer Hillman Jackson
7 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

To be clear, you want to filter for insert sizes less than 100k bases? Try this:

Filter BAM datasets on a variety of attributes (Galaxy Version 2.4.1) BAM dataset(s) to filter

Condition > Filter > Select BAM property to filter on > choose insertSize > then set the expression to <=100000

Thanks, Jen, Galaxy team
ADD COMMENT • link written 7 months ago by Jennifer Hillman Jackson ♦ 25k
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