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Open Graph Title: pachterlab/splitcode

X Title: pachterlab/splitcode

Description: Flexible and efficient parsing, interpreting and editing of sequencing reads - pachterlab/splitcode

Open Graph Description: Flexible and efficient parsing, interpreting and editing of sequencing reads - pachterlab/splitcode

X Description: Flexible and efficient parsing, interpreting and editing of sequencing reads - pachterlab/splitcode

Opengraph URL: https://github.com/pachterlab/splitcode

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Code https://github.com/pachterlab/splitcode
Issues 12 https://github.com/pachterlab/splitcode/issues
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Reverse complement config option seems incompatible with tags from fileshttps://github.com/pachterlab/splitcode/issues/43
clintvalhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Aclintval
How to trim after, instead of before, extractionhttps://github.com/pachterlab/splitcode/issues/40
clintvalhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Aclintval
splitcode to get the read index of matching sequenceshttps://github.com/pachterlab/splitcode/issues/36
BiotechPedrohttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3ABiotechPedro
Test not running to completion on aarch64-linuxhttps://github.com/pachterlab/splitcode/issues/31
bugSomething isn't workinghttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Abug
zimwardhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Azimward
Have --keep be able to output into BAM files rather than FASTQ fileshttps://github.com/pachterlab/splitcode/issues/29
enhancementNew feature or requesthttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Aenhancement
Yenaledhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3AYenaled
Extract barcodes (sample and UMI) from read nameshttps://github.com/pachterlab/splitcode/issues/22
enhancementNew feature or requesthttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Aenhancement
nh13https://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Anh13
Allow stitching together extraction sequences of different names and allow extraction of final barcode sequencehttps://github.com/pachterlab/splitcode/issues/21
enhancementNew feature or requesthttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Aenhancement
Yenaledhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3AYenaled
allow subs to make a substitution to an empty string (i.e. delete the entire sequence)https://github.com/pachterlab/splitcode/issues/20
enhancementNew feature or requesthttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Aenhancement
Yenaledhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3AYenaled
feature request: support unmapped BAMs as inputhttps://github.com/pachterlab/splitcode/issues/17
enhancementNew feature or requesthttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Aenhancement
znorgaardhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Aznorgaard
Long-read usagehttps://github.com/pachterlab/splitcode/issues/16
mcortes-lopezhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Amcortes-lopez
Counting all tag combinations and reads without tagshttps://github.com/pachterlab/splitcode/issues/14
enhancementNew feature or requesthttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20label%3Aenhancement
andreafrattonhttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3Aandreafratton
Feature request: Processing on multiple sets of FASTQ fileshttps://github.com/pachterlab/splitcode/issues/13
JohnMMahttps://github.com/pachterlab/splitcode/issues?q=is%3Aissue%20state%3Aopen%20author%3AJohnMMa
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