Question

Extract sample information from own BAM files using SGSeq

1

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anjanhazra ▴ 10

@anjanhazra-22513

Last seen 4.9 years ago

I have a set of BAM files that are mapped through a splice aware program. Please help to extract the sample information from my own BAM files through the getBamInfo() command.

SGSeq • 978 views

ADD COMMENT • link updated 5.0 years ago by Leonard Goldstein ▴ 260 • written 5.0 years ago by anjanhazra ▴ 10

score 1 · Answer 1 · 2019-12-05

1

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Leonard Goldstein ▴ 260

@leonard-goldstein-6845

Last seen 6 months ago

Australia

Please read the help page for getBamInfo and SGSeq vignette section 2. Note that your BAM files must contain the custom tag 'XS' for spliced reads. If you are looking for help with a particular problem or error you need to provide more information (error message, sessionInfo() output, aligner information etc.)

ADD COMMENT • link 5.0 years ago Leonard Goldstein ▴ 260