bioinformatics-toolkit
samtools
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| bioinformatics-toolkit | samtools | |
|---|---|---|
| - | 3 | |
| 12 | 1,543 | |
| - | 2.1% | |
| 0.0 | 8.4 | |
| over 1 year ago | 6 days ago | |
| Haskell | C | |
| MIT License | GNU General Public License v3.0 or later |
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bioinformatics-toolkit
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Tracking mentions began in Dec 2020.
samtools
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BWA MEM with merged paired-end reads and unmerged in the same run.
I don’t know about your first question, but for your second, use “bwa mem -p …” for smart pairing of an interleaved FASTQ/A with both paired end reads and singletons. BWA will recognize whether adjacent reads are paired if they have the same prefix (see here)
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Show a Tanuki with Samtools!
In this post, I'm going to add the command tanuki to Samtools to display a ASCII art(AA) tanuki.
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How do I know if I'm gonna get my module?
Quite a number of bioinformatics related tool that were written in C/C++, eg. (https://github.com/samtools/samtools). But there are also a lot of modern packages for Python / R now
What are some alternatives?
Genbank - Genbank format tools and parser
seqtk - Toolkit for processing sequences in FASTA/Q formats
ViennaRNAParser
MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite
taxonomy - An open source application built using the new router, server components and everything new in Next.js 13.
RNAlien - RNAlien - unsupervised RNA family model construction
cmv - Visualize HMMs, CMs and their comparisons
libdna - ♥ Essential Functions for DNA Manipulation
hPDB - PDB parser in Haskell
libBigWig - A C library for handling bigWig files
Gene-CluEDO - Gene Cluster Evolution Determined Order
htslib - C library for high-throughput sequencing data formats