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mashmap
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public |
A fast approximate aligner for long DNA sequences.
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2024-10-04 |
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kleborate
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public |
Kleborate: a tool for typing and screening pathogen genome assemblies
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2024-10-04 |
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hmftools-cobalt
|
public |
Calculate read-depth counts and GC ratios to use in PURPLE.
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2024-10-04 |
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hmftools-amber
|
public |
Generates a tumor BAF file for use in PURPLE.
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2024-10-04 |
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lighter
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public |
Lighter is a kmer-based error correction method for whole genome sequencing data
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2024-10-03 |
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pysradb
|
public |
Python package for retrieving metadata and downloading datasets from SRA/ENA/GEO
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2024-10-03 |
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perl-convert-binary-c
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public |
Binary Data Conversion using C Types
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2024-10-02 |
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galaxy_sequence_utils
|
public |
Sequence Utilities from the Galaxy project
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2024-10-02 |
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gappa
|
public |
Genesis Applications for Phylogenetic Placement Analysis
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2024-10-02 |
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nanosim
|
public |
NanoSim is a fast and scalable read simulator for Nanopore sequencing data.
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2024-10-02 |
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mhcflurry
|
public |
MHC Binding Predictor
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2024-10-02 |
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bambamc
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public |
lightweight C implementation of name collating BAM file input and BAM file output
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2024-10-02 |
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multiqc
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public |
Create aggregate bioinformatics analysis reports across many samples and tools.
|
2024-10-01 |
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python-hivclustering
|
public |
A Python 3 library that makes inferences on HIV-1 transmission networks.
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2024-10-01 |
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peptide-shaker
|
public |
Independent platform for interpretation of proteomics identification results.
|
2024-10-01 |
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searchgui
|
public |
User-friendly graphical tool for using proteomics identification search engines.
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2024-10-01 |
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pyteomics
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public |
A framework for proteomics data analysis.
|
2024-10-01 |
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bioconda-utils
|
public |
Utilities for building and managing bioconda recipes.
|
2024-09-30 |
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agfusion
|
public |
Python package to annotate and visualize gene fusions.
|
2024-09-30 |
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genomedata
|
public |
Tools for accessing large amounts of genomic data
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2024-09-29 |
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parsnp
|
public |
Parsnp is a command-line-tool for efficient microbial core genome alignment and SNP detection.
|
2024-09-28 |
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trnascan-se
|
public |
tRNA detection in large-scale genomic sequences
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2024-09-27 |
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infernal
|
public |
Infernal is for searching DNA sequence databases for RNA structure and sequence similarities.
|
2024-09-27 |
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dxpy
|
public |
DNAnexus Platform API bindings for Python
|
2024-09-26 |
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vsearch
|
public |
A versatile open source tool for metagenomics (USEARCH alternative)
|
2024-09-26 |
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snakemake-minimal
|
public |
A popular workflow management system aiming at full in-silico reproducibility.
|
2024-09-25 |
|
snakemake
|
public |
A popular workflow management system aiming at full in-silico reproducibility.
|
2024-09-25 |
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delly
|
public |
Structural variant discovery by integrated paired-end and split-read analysis
|
2024-09-25 |
|
kallisto
|
public |
Quantifying abundances of transcripts from RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads.
|
2024-09-25 |
|
planemo
|
public |
Command-line utilities to assist in building tools for the Galaxy project (http://galaxyproject.org/).
|
2024-09-24 |
|
bbmap
|
public |
BBMap is a short read aligner, as well as various other bioinformatic tools.
|
2024-09-24 |
|
itsxpress
|
public |
ITSxpress: Software to rapidly trim the Internally Transcribed Spacer (ITS) region from FASTQ files
|
2024-09-23 |
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guidescan
|
public |
GuideScan is a tool for genome-wide CRISPR guide RNA (gRNA) design and analysis in custom genomes.
|
2024-09-23 |
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checkm-genome
|
public |
Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes.
|
2024-09-23 |
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percolator
|
public |
Semi-supervised learning for peptide identification from shotgun proteomics datasets.
|
2024-09-20 |
|
gmap
|
public |
Genomic mapping and alignment program for mRNA and EST sequences.
|
2024-09-20 |
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fastq-screen
|
public |
FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect.
|
2024-09-20 |
|
blast-legacy
|
public |
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences.
|
2024-09-20 |
|
fiji
|
public |
Fiji is an image processing package—a "batteries-included" distribution of ImageJ, bundling a lot of plugins which facilitate scientific image analysis.
|
2024-09-19 |
|
openms
|
public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
|
2024-09-19 |
|
kraken2
|
public |
Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.
|
2024-09-19 |
|
jalview
|
public |
Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation.
|
2024-09-19 |
|
r-wgcna
|
public |
Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data as originally described in Horvath and Zhang (2005) <doi:10.2202/1544-6115.1128> and Langfelder and Horvath (2008) <doi:10.1186/1471-2105-9-559>. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.
|
2024-09-18 |
|
intarna
|
public |
Efficient RNA-RNA interaction prediction incorporating seeding and accessibility of interacting sites
|
2024-09-18 |
|
repeatmasker
|
public |
RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
|
2024-09-17 |
|
busco
|
public |
Assessment of assembly completeness using Universal Single Copy Orthologs
|
2024-09-17 |
|
genomepy
|
public |
Install and use genomes & gene annotations the easy way!
|
2024-09-17 |
|
tracy
|
public |
Basecalling, alignment, assembly and deconvolution of Sanger chromatogram trace files
|
2024-09-17 |
|
vcflib
|
public |
Command-line tools for manipulating VCF files.
|
2024-09-17 |
|
mirtop
|
public |
Small RNA-seq annotation.
|
2024-09-17 |
