samtools vs Genbank

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data (by samtools)

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Source Code

htslib.org

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Genbank

Genbank format tools and parser (by eggzilla)

Specific Industries Bioinformatics

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samtools		Genbank
	Project
3	Mentions	-
1,546	Stars	10
2.3%	Growth	-
8.4	Activity	0.0
7 days ago	Latest Commit	over 2 years ago
C	Language	Haskell
GNU General Public License v3.0 or later	License	LicenseRef-GPL

The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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

Posts with mentions or reviews of samtools. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2022-10-18.

BWA MEM with merged paired-end reads and unmerged in the same run.
1 project | /r/bioinformatics | 13 Jun 2023

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)
Show a Tanuki with Samtools!
2 projects | dev.to | 18 Oct 2022

In this post, I'm going to add the command tanuki to Samtools to display a ASCII art(AA) tanuki.
How do I know if I'm gonna get my module?
1 project | /r/nus | 7 Jan 2022

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

Genbank

Posts with mentions or reviews of Genbank. We have used some of these posts to build our list of alternatives and similar projects.

We haven't tracked posts mentioning Genbank yet.
Tracking mentions began in Dec 2020.

What are some alternatives?

When comparing samtools and Genbank you can also consider the following projects:

seqtk - Toolkit for processing sequences in FASTA/Q formats

uniprot-kb - UniProt-KB format parser

MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite

samtools - [Moved to: https://github.com/ingolia/SamTools]

RNAlien - RNAlien - unsupervised RNA family model construction

bioinformatics-toolkit - A collection of bioinformatics algorithms

libBigWig - A C library for handling bigWig files

ViennaRNAParser

libdna - ♥ Essential Functions for DNA Manipulation

Taxonomy - Haskell cabal Taxonomy libary contains tools, parsers, datastructures and visualisation for the NCBI (National Center for Biotechnology Information) Taxonomy datasources.

htslib - C library for high-throughput sequencing data formats

phybin - Binning (Newick) Phylogenetic Trees by Topology