|
readfq
|
public |
A high-speed tool to calculate reads number and total base count in FASTQ file, forked from Li Heng's original version
|
2025-07-28 |
|
kmergenie
|
public |
KmerGenie estimates the best k-mer length for genome de novo assembly
|
2025-07-28 |
|
maker
|
public |
MAKER is a portable and easily configurable genome annotation pipeline.
|
2025-07-28 |
|
graphaligner
|
public |
Sequence to graph aligner for long reads
|
2025-07-27 |
|
plass
|
public |
Plass (Protein-Level ASSembler) and PenguiN (Protein-guided Nucleotide assembler) are methods to assemble short read sequencing data on a protein level to proteins or DNA contigs
|
2025-07-27 |
|
mmseqs2
|
public |
MMseqs2: ultra fast and sensitive sequence search and clustering suite
|
2025-07-27 |
|
perl-dbd-sqlite
|
public |
Self Contained RDBMS in a DBI Driver
|
2025-07-24 |
|
rnashapes
|
public |
RNAshape abstraction maps structures to a tree-like domain of shapes, retaining adjacency and nesting of structural features, but disregarding helix lengths. Shape abstraction integrates well with dynamic programming algorithms, and hence it can be applied during structure prediction rather than afterwards. This avoids exponential explosion and can still give us a non-heuristic and complete account of properties of the molecule's folding space.
|
2025-07-24 |
|
perl-perlio-utf8_strict
|
public |
Fast and correct UTF-8 IO.
|
2025-07-24 |
|
bellmans-gapc
|
public |
A language and compiler for algebraic dynamic programming.
|
2025-07-24 |
|
pysam
|
public |
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
|
2025-07-24 |
|
star
|
public |
An RNA-seq read aligner.
|
2025-07-24 |
|
cas-offinder
|
public |
Cas-OFFinder is OpenCL based, ultrafast and versatile program that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases (RGEN).
|
2025-07-24 |
|
minialign
|
public |
Fast and accurate alignment tool for PacBio and Nanopore long reads.
|
2025-07-24 |
|
goalign
|
public |
goalign is a set of command line tools to manipulate multiple alignments
|
2025-07-22 |
|
parasail-python
|
public |
Python bindings for the parasail C library containing implementations of pairwise sequence alignment algorithms.
|
2025-07-22 |
|
cooler
|
public |
Sparse binary format for genomic interaction matrices.
|
2025-07-22 |
|
bbmap
|
public |
BBMap is a short read aligner, as well as various other bioinformatic tools.
|
2025-07-21 |
|
htseq
|
public |
HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
|
2025-07-21 |
|
bioconductor-hmmcopy
|
public |
Copy number prediction with correction for GC and mappability bias for HTS data
|
2025-07-21 |
|
hmftools-purple
|
public |
PURPLE is a purity ploidy estimator for tumor samples.
|
2025-07-21 |
|
hmftools-amber
|
public |
Generates a tumor BAF file for use in PURPLE.
|
2025-07-21 |
|
gb_taxonomy_tools
|
public |
These are four simple utilities which perform certain manipulations and visualization tasks on GenBank taxonomic information.
|
2025-07-18 |
|
mosdepth
|
public |
Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.
|
2025-07-18 |
|
bioconductor-lpsymphony
|
public |
Symphony integer linear programming solver in R
|
2025-07-17 |
