BioHMM
samtools
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BioHMM | samtools | |
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- | 3 | |
3 | 1,546 | |
- | 2.3% | |
0.0 | 8.4 | |
almost 7 years ago | 6 days ago | |
Haskell | C | |
GNU General Public License v3.0 only | GNU General Public License v3.0 or later |
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For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
BioHMM
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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?
ViennaRNAParser
seqtk - Toolkit for processing sequences in FASTA/Q formats
rank-product - Collects the functions pertaining to finding the rank product of a data set as well as the associated p-value.
MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite
vcf - Haskell library to handle VCF (Variant Call Format) files
RNAlien - RNAlien - unsupervised RNA family model construction
SelectSequencesFromMSA - Tool to select representative sequences from a multiple sequence alignment
libBigWig - A C library for handling bigWig files
mmtf - MMTF for Haskell
libdna - ♥ Essential Functions for DNA Manipulation
hPDB - PDB parser in Haskell
htslib - C library for high-throughput sequencing data formats