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Recent Replies
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
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WouterDeCoster
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I want reads in a specific short interval, but if I do that with samtools view I also get reads that are spliced over that interval.
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Hello,
I would recommend following RSEM wiki for more information about the options, or even run RSEM directly, not with the script provi…
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this is names.dmp:![names.dmp][1]
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[1]: /media/images/33cc9a8b-4818-48b4-913d-1c2b2185
[2]: /media/i…
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
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see also : https://www.biostars.org/p/9537698/ ; https://www.biostars.org/p/9464312/ ; https://www.biostars.org/p/417123/
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what's the gray section ? it's the read you want ? do you only want the reads that end at the splice event (single point location) ?
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yes if there is more than one sample genotyped.
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Is it typical to observe such a profile in the context of diploid organism ?
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let me know the scope and scale of the request (e.g. I need to do this for every record in Pubmed) and can help
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I was able to come up with a workaround using the requests library:
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