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pysam
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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.
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2025-07-24 |
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star
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public |
An RNA-seq read aligner.
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2025-07-24 |
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cas-offinder
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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).
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2025-07-24 |
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minialign
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public |
Fast and accurate alignment tool for PacBio and Nanopore long reads.
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2025-07-24 |
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goalign
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public |
goalign is a set of command line tools to manipulate multiple alignments
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2025-07-22 |
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parasail-python
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public |
Python bindings for the parasail C library containing implementations of pairwise sequence alignment algorithms.
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2025-07-22 |
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cooler
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public |
Sparse binary format for genomic interaction matrices.
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2025-07-22 |
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bbmap
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public |
BBMap is a short read aligner, as well as various other bioinformatic tools.
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2025-07-21 |
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htseq
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public |
HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
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2025-07-21 |
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bioconductor-hmmcopy
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public |
Copy number prediction with correction for GC and mappability bias for HTS data
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2025-07-21 |
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hmftools-purple
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public |
PURPLE is a purity ploidy estimator for tumor samples.
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2025-07-21 |
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hmftools-amber
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public |
Generates a tumor BAF file for use in PURPLE.
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2025-07-21 |
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gb_taxonomy_tools
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public |
These are four simple utilities which perform certain manipulations and visualization tasks on GenBank taxonomic information.
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2025-07-18 |
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mosdepth
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public |
Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.
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2025-07-18 |
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bioconductor-lpsymphony
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public |
Symphony integer linear programming solver in R
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2025-07-17 |
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prodigal
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public |
Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm) is a microbial (bacterial and archaeal) gene finding program
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2025-07-17 |
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perl-experimental
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public |
Experimental features made easy
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2025-07-17 |
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transdecoder
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public |
TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks.
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2025-07-16 |
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slclust
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public |
A utility that performs single-linkage clustering with the option of applying a Jaccard similarity coefficient to break weakly bound clusters into distinct clusters.
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2025-07-16 |
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tn93
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public |
This is a simple program meant to compute pairwise distances between aligned nucleotide sequences in sequential FASTA format using the Tamura Nei 93 distance.
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2025-07-16 |
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star-fusion
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public |
STAR-Fusion fusion variant caller. All dependencies required to run FusionInspector and FusionAnnotator are included.
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2025-07-16 |
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searchgui
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public |
User-friendly graphical tool for using proteomics identification search engines.
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2025-07-16 |
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scoop
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public |
Scalable COncurrent Operations in Python.
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2025-07-16 |
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wheezy.template
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public |
A lightweight template library.
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2025-07-16 |
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maxentpy
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public |
maxentpy is a python wrapper for MaxEntScan to calculate splice site strength.
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2025-07-16 |
