mmokrejs

abyss

:microscope: Assemble large genomes using short reads

adapterremoval

AdapterRemoval v2 - rapid adapter trimming, identification, and read merging

bamql

Query language for filtering SAM/BAM reads

biopython

Official git repository for Biopython (converted from CVS)

bwa

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

canu

A single molecule sequence assembler for genomes large and small.

cdhit

Automatically exported from code.google.com/p/cdhit

Fastaq

Python3 scripts to manipulate FASTA and FASTQ files

GenomicRanges

Container class to represent genomic locations and support genomic analysis

gentoo

The Gentoo ebuild repository mirror

gofasta

keepassxc

KeePassXC is a cross-platform community-driven port of the Windows application “Keepass Password Safe”.

lib2bit

A C library for accessing 2bit files

libdeflate

Heavily optimized library for DEFLATE/zlib/gzip compression and decompression

LINKS

⛓Long Interval Nucleotide K-mer Scaffolder

matplotlib

matplotlib: plotting with Python

md5

MD5 offers basic cryptographic facilities for Lua 5.1.

nanocorrect

Experimental pipeline for correcting nanopore reads

nanopolish

Signal-level algorithms for MinION data

NxTrim

Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.

sci

[MIRROR] Gentoo Science Overlay

seqtk

Toolkit for processing sequences in FASTA/Q formats

sga

de novo sequence assembler using string graphs

SOAPdenovo2

Next generation sequencing reads de novo assembler.

spades

SPAdes Genome Assembler http://cab.spbu.ru/spades

tigmint

⛓ Correct misassemblies using linked AND long reads

TPSdownloader

Fetch TPS cyclases information from various sources

transXpress-snakemake

transXpress: a Snakemake pipeline for rapid de novo transcriptome assembly and annotation

whisper-ctranslate2

Whisper command line client compatible with original OpenAI client based on CTranslate2.