Nov 29 2022
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Julia
a flexible dynamic language appropriate for scientific and numerical computing with performance comparable to traditional statically-typed languages.
Updated versions:
1.8.3 | Linux 64
1.8.3 | OS X INTEL
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Nov 21 2022
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AWS CLI
(Amazon Web Services Command Line Interface) a command line interface tool to manage multiple Amazon Web Services and automate them through scripts.
Updated versions:
1.27.13 | Linux 64
1.27.13 | OS X INTEL
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Nov 21 2022
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FASTA
a DNA and protein sequence alignment software package that searches for matching sequence patterns or words, called k-tuples.
Updated versions:
36.3.8i | Linux 64
36.3.8i | OS X INTEL
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Nov 21 2022
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BLAST+
a suite of BLAST (Basic Local Alignment Search Tool) tools that utilizes the NCBI C++ Toolkit with a number of performance and feature improvements over the legacy BLAST applications.
Updated versions:
2.13.0 | Linux 64
2.12.0 | Linux 64
2.13.0 | OS X INTEL
2.12.0 | OS X INTEL
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Nov 21 2022
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fibertools-rs
a CLI tool for interacting with fiberseq bam files.
Updated versions:
0.0.8 | OS X INTEL
0.0.8 | Linux 64
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Nov 21 2022
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cellsnp-lite
Efficient genotyping bi-allelic SNPs on single cells
Updated versions:
1.2.2 | Linux 64
1.2.2 | OS X INTEL
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Nov 21 2022
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dnaio
is a Python 3.7+ library for very efficient parsing and writing of FASTQ and also FASTA files.
Updated versions:
0.9.1 | Linux 64
0.9.1 | OS X INTEL
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Nov 21 2022
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crimson
Bioinformatics tool outputs converter to JSON or YAML.
Updated versions:
1.1.0 | OS X INTEL
1.1.0 | Linux 64
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Nov 21 2022
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BamToCov
Extract coverage information from BAM files, supporting stranded and physical coverage and streams.
Updated versions:
2.7.0 | Linux 64
2.7.0 | OS X INTEL
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Nov 20 2022
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sscocaller
Haplotyping single-cell DNA sequenced gamete cells.
Updated versions:
0.2.2 | OS X INTEL
0.2.2 | Linux 64
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Nov 20 2022
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sdm
simple demultiplex tool for FASTQ demultiplexing and dereplication.
Updated versions:
2.05 | Linux 64
2.05 | OS X INTEL
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Nov 18 2022
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mbg
Minimizer based sparse de Bruijn graph constructor.
Updated versions:
1.0.12 | OS X INTEL
1.0.12 | Linux 64
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Nov 18 2022
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tantan
tantan masks simple regions (low complexity & short-period tandem repeats) in biological sequences.
Updated versions:
40 | OS X INTEL
40 | Linux 64
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Nov 18 2022
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srnaMapper
Mapping small RNA data to a genome.
Updated versions:
1.0.8 | Linux 64
1.0.8 | OS X INTEL
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Nov 18 2022
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cas-offinder
Cas-OFFinder is OpenCL based, ultrafast and versatile program that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases (RGEN).
Updated versions:
2.4 | OS X INTEL
2.4 | Linux 64
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Nov 18 2022
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arcs
Scaffolding genome sequence assemblies using linked or long reads.
Updated versions:
1.2.4 | OS X INTEL
1.2.4 | Linux 64
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Nov 17 2022
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strike
A program to evaluate protein multiple sequence alignments using a single protein structure.
Updated versions:
1.2 | Linux 64
1.2 | OS X INTEL
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Nov 17 2022
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RFDesign
a tool for protein hallucination and inpainting with RoseTTAFold.
Updated versions:
c882ab0 | Linux 64
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Nov 16 2022
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ghostz
is a highly efficient remote homologue detection tool.
Updated versions:
1.0.0 | OS X INTEL
1.0.2 | Linux 64
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Nov 16 2022
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spoa
SIMD partial order alignment tool/library.
Updated versions:
4.0.7 | Linux 64
4.0.7 | OS X INTEL
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Nov 16 2022
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stark
A tool for bluntifying a bidirected de bruijn graph by removing overlaps.
Updated versions:
0.1.1 | Linux 64
0.1.1 | OS X INTEL
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Nov 16 2022
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rustybam
is a bioinformatics toolkit written in the rust programing language focused around manipulation of alignment (bam and PAF), annotation (bed), and sequence (fasta and fastq) files.
Updated versions:
0.1.31 | OS X INTEL
0.1.31 | Linux 64
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Nov 15 2022
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poppunk
(POPulation Partitioning Using Nucleotide Kmers) Calculate core and accessory distances, cluster genomes, assign new genomes to clusters, make visualisations
Updated versions:
2.5.0 | Linux 64
2.5.0 | OS X INTEL
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Nov 10 2022
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ViennaRNA
Vienna RNA package -- RNA secondary structure prediction and comparison
Updated versions:
2.5.1 | Linux 64
2.5.1 | OS X INTEL
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Nov 10 2022
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UniFrac
Fast phylogenetic diversity calculations
Updated versions:
1.1.3 | Linux 64
1.1.3 | OS X INTEL
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Nov 10 2022
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AlphaFold
an implementation of the inference pipeline of AlphaFold v2.0 using a completely new model that was entered in CASP14.
Updated versions:
2.2.3 | Linux 64
2.2.4 | Linux 64
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Nov 09 2022
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deblur
Deblur is a greedy deconvolution algorithm for amplicon sequencing based on Illumina Miseq/Hiseq error profiles.
Updated versions:
1.1.1 | OS X INTEL
1.1.1 | Linux 64
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Nov 08 2022
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cooler
is a support library for a sparse, compressed, binary persistent storage format, also called cooler, used to store genomic interaction data, such as Hi-C contact matrices.
Updated versions:
0.8.11 | Linux 64
0.8.11 | OS X INTEL
0.8.9 | OS X INTEL
0.8.9 | Linux 64
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Nov 07 2022
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mwga-utils
collection of utilities for processing Multispecies Whole Genome Alignments
Updated versions:
0.1.6 | Linux 64
0.1.6 | OS X INTEL
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Nov 04 2022
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staramr
Scan genome contigs against the ResFinder and PointFinder databases
Updated versions:
0.9.0 | OS X INTEL
0.9.0 | Linux 64
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Nov 01 2022
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CellProfiler
a cell image analysis software designed to enable biologists without training in computer vision or programming to quantitatively measure phenotypes from thousands of images automatically.
Updated versions:
4.2.1 | Linux 64
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