bowtie2
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BenLangmead
A fast and sensitive gapped read aligner
On the latest master branch: `b8c13c0401885873a99b229fca668deecde08749`, `bowtie2-align-s`, `bowtie2-build-s` and `bowtie2-inspect-s` commands are displayed as version info. Is it intended? ``` $ make ``` ``` $ ./bowtie2 --version /home/jaruga/git/bowtie2/bowtie2-align-s version 2.4.1...
Hello! I have had a really mysterious problem when trying to compile my own bowtie2 with MSYS2/Mingw-w64: compiled versions of bowtie2 can't open any gzipped files! For example single-ended: `bowtie2...
In order to support the arm platform，the above code has been added.
The test script shows 2 warnings in the log. You can see [the Travis log](https://travis-ci.org/github/BenLangmead/bowtie2/jobs/656465114#L1134). ``` $ perl -cw scripts/test/simple_tests.pl \1 better written as $1 at scripts/test/simple_tests.pl line 4671. \1...
I am debuging seeing the Travis log now. I have 2 suggestions to improve the Travis log's readability. * Split the script command. * Add a mark for each test...
Hello, I am getting a unique mapping with bowtie2 providing a reference sequence inline or in fasta, vs one mapping plus a secondary mapping when providing a fastq file. Why...
Hello, I am new to bioinformatics and currently facing an issue I could not find a solution of. I was trying to use Bowtie/2.3.5.1 to map a big .fasta file...
Dear Bowtie2 team, I am trying to find the all best alignments of true multi mapping read. I hoped this would be possible by using the -k/-a option and only...
Perhaps you could mention under "Obtaining Bowtie" that bowtie2 is available in FreeBSD ports. FreeBSD users can simply run: `pkg install bowtie2` Thanks. JB
As this issue comes from bowtie. And as it's same with bowtie2 as well, I would report it here too. See https://github.com/BenLangmead/bowtie/issues/104