samtools
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| samtools | BlastHTTP | |
|---|---|---|
| 3 | - | |
| 1,546 | 5 | |
| 2.3% | - | |
| 8.4 | 0.0 | |
| 7 days ago | almost 3 years ago | |
| C | Haskell | |
| GNU General Public License v3.0 or later | GNU General Public License v3.0 only |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
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.
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
BlastHTTP
We haven't tracked posts mentioning BlastHTTP yet.
Tracking mentions began in Dec 2020.
What are some alternatives?
seqtk - Toolkit for processing sequences in FASTA/Q formats
ViennaRNAParser
MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite
SelectSequencesFromMSA - Tool to select representative sequences from a multiple sequence alignment
RNAlien - RNAlien - unsupervised RNA family model construction
phybin - Binning (Newick) Phylogenetic Trees by Topology
libBigWig - A C library for handling bigWig files
bio-sequence
libdna - ♥ Essential Functions for DNA Manipulation
samtools - [Moved to: https://github.com/ingolia/SamTools]
htslib - C library for high-throughput sequencing data formats
vcf - Haskell library to handle VCF (Variant Call Format) files