BBMap Discussion

BBMap short read aligner, and other bioinformatic tools.

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General Discussion

Forum about anything you want to talk about.

Topic	Posts	Views	Last Post
filterbyname By Samantha M Zarnick on Wed Feb 05, 2025 09:16 PM	1	74	By Samantha M Zarnick on Wed Feb 05, 2025 09:16 PM
suggested bbmerge improvements By Eric Boyden on Wed Jun 12, 2024 09:29 PM	1	175	By Eric Boyden on Wed Jun 12, 2024 09:29 PM
suggested improvements By Eric Boyden on Wed Jun 12, 2024 09:13 PM	1	83	By Eric Boyden on Wed Jun 12, 2024 09:13 PM
GC content for paired-reads By Priscilla Glenn on Wed Dec 06, 2023 07:47 PM	1	104	By Priscilla Glenn on Wed Dec 06, 2023 07:47 PM
finding references (phiX174 and adapters) for bbduk By Jay Osvatic on Mon Mar 20, 2023 11:49 AM	1	316	By Jay Osvatic on Mon Mar 20, 2023 11:49 AM
Quality filtering on minimum average quality By Jake on Fri Sep 16, 2022 10:16 PM	2	251	By Jake on Wed Sep 21, 2022 06:02 PM
Java issue By Muku on Wed Aug 03, 2022 07:40 PM	1	280	By Muku on Wed Aug 03, 2022 07:40 PM
Gene coverage detection output from pileup.sh By Linton Freund on Mon Dec 20, 2021 05:04 PM	1	251	By Linton Freund on Mon Dec 20, 2021 05:04 PM
Gene coverage detection output from pileup.sh By Linton Freund on Mon Dec 20, 2021 05:04 PM	1	346	By Linton Freund on Mon Dec 20, 2021 05:04 PM
Demultiplexing while allowing mismatches By Shahar Rezenman on Wed Sep 30, 2020 04:31 PM	1	393	By Shahar Rezenman on Wed Sep 30, 2020 04:31 PM
Unambiguous Mapping By Helen on Sat Mar 07, 2020 02:14 PM	1	322	By Helen on Sat Mar 07, 2020 02:14 PM
Merge Reads, only keep matching bases, replace rest with Ns By Mick on Sat Dec 28, 2019 10:35 PM	1	303	By Mick on Sat Dec 28, 2019 10:35 PM
How to contribute By darking on Sat Oct 05, 2019 11:21 AM	2	430	By Jun Aruga on Sat Dec 07, 2019 06:20 PM
randomreads.sh By Teunis on Sun Jul 20, 2014 04:01 PM	6	1615	By renekat on Sat Sep 07, 2019 03:58 PM
Do I need to use dedup.sh or clumpify.sh to do dereplicate with BBmap? By Xiaotao Jiang on Mon Aug 05, 2019 12:22 AM	1	746	By Xiaotao Jiang on Mon Aug 05, 2019 12:22 AM
How to limit number of CPU cores used by clumpify.sh? By Vojtěch Zeisek on Thu Mar 14, 2019 02:00 PM	1	305	By Vojtěch Zeisek on Thu Mar 14, 2019 02:00 PM
How to limit number of CPU cores used by clumpify.sh? By Vojtěch Zeisek on Thu Mar 14, 2019 01:54 PM	1	158	By Vojtěch Zeisek on Thu Mar 14, 2019 01:54 PM
BBDuk2 in BBMap 38.41 By BoBo on Fri Mar 01, 2019 02:28 PM	1	294	By BoBo on Fri Mar 01, 2019 02:28 PM
mapPacBio.sh does not run on windows 10 (DOS and windows powel shell) By Cecilio Jimenes on Fri Jan 18, 2019 11:13 PM	1	397	By Cecilio Jimenes on Fri Jan 18, 2019 11:13 PM
align short sequence By Taz on Wed Oct 25, 2017 06:20 PM	1	310	By Taz on Wed Oct 25, 2017 06:20 PM
reorder sequence By shengweima on Fri Feb 17, 2017 12:50 AM	1	413	By shengweima on Fri Feb 17, 2017 12:50 AM
Feature request: translate6frames.sh By cslim on Mon Dec 05, 2016 08:30 AM	1	320	By cslim on Mon Dec 05, 2016 08:30 AM
Exception in thread "main" java.lang.AssertionError: By Rbeinart on Mon Jul 18, 2016 09:05 PM	1	1587	By Rbeinart on Mon Jul 18, 2016 09:05 PM
bbmap docker and InsideDNA By Anna Kostikova on Sat Jun 25, 2016 05:51 PM	1	545	By Anna Kostikova on Sat Jun 25, 2016 05:51 PM
Dedupe paired end example By Seigfried on Thu May 19, 2016 08:43 AM	2	2841	By Brian Bushnell on Mon Jun 20, 2016 11:43 PM

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