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seurat-scripts
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public |
A set of wrappers for individual components of the Seurat package.
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2024-09-20 |
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haystac
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public |
Species identification pipeline for both single species and metagenomic samples.
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2024-09-20 |
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locityper
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public |
Targeted genotyper for complex polymorphic loci from short and long read WGS.
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2024-09-20 |
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exomiser-rest-prioritiser
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public |
Exomiser prioritiser REST API
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2024-09-20 |
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ensembl-utils
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public |
Ensembl Python general-purpose utils
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2024-09-20 |
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wally
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public |
Visualization of aligned sequencing reads and genomic variants.
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2024-09-20 |
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busco_phylogenomics
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public |
Utility script to construct species phylogenies using BUSCO proteins.
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2024-09-20 |
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blast-legacy
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public |
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences.
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2024-09-20 |
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phykit
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public |
PhyKIT is a UNIX shell toolkit for processing and analyzing phylogenomic data.
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2024-09-20 |
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pango-designation
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public |
Repository for suggesting new lineages that should be added to the current
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2024-09-20 |
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agat
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public |
Another Gff Analysis Toolkit (AGAT). Suite of tools to handle gene annotations in any GTF/GFF format.
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2024-09-19 |
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fiji
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public |
Fiji is an image processing package—a "batteries-included" distribution of ImageJ, bundling a lot of plugins which facilitate scientific image analysis.
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2024-09-19 |
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gencove
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public |
Gencove is a high-throughput, cost-effective platform for genome sequencing and analysis. This command-line interface can be used to easily access the Gencove API.
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2024-09-19 |
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peptides
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public |
Physicochemical properties, indices and descriptors for amino-acid sequences.
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2024-09-19 |
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libopenms
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2024-09-19 |
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openms-thirdparty
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2024-09-19 |
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openms
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public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
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2024-09-19 |
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emu
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public |
Emu is a relative abundance estimator for 16s genomic data.
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2024-09-19 |
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scarches
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public |
Transfer learning with Architecture Surgery on Single-cell data
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2024-09-19 |
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kraken2
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public |
Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.
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2024-09-19 |
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dfast_qc
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public |
DFAST_QC: Taxonomy and completeness check for prokaryotic genomes
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2024-09-19 |
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superdsm
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public |
SuperDSM is a globally optimal segmentation method based on superadditivity and deformable shape models for cell nuclei in fluorescence microscopy images and beyond.
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2024-09-19 |
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pydamage
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public |
Damage parameter estimation for ancient DNA
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2024-09-19 |
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pyfamsa
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public |
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
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2024-09-19 |
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nanomotif
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public |
Identifying methlyation motifs in nanopore data
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2024-09-19 |
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tiberius
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public |
Tiberius is a programme for quantifying and analysing genetic sequence data.
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2024-09-19 |
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methylartist
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public |
Tools for parsing and plotting nanopore methylation data
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2024-09-19 |
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seq-hasher
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public |
Compute hash digests for DNA sequences in a FASTA file, with support for circular permutations
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2024-09-19 |
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tr-trimmer
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public |
Identify and trim terminal repeats from sequences in FASTA files
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2024-09-19 |
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dicey
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public |
In-silico PCR and variant primer design
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2024-09-19 |
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jalview
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public |
Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation.
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2024-09-19 |
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abpoa
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public |
abPOA: fast SIMD-based partial order alignment using adaptive band
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2024-09-18 |
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pyabpoa
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public |
pyabpoa: SIMD-based partial order alignment using adaptive band
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2024-09-18 |
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igv-reports
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public |
Creates self-contained html pages for visual variant review with IGV (igv.js).
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2024-09-18 |
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r-wgcna
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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.
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2024-09-18 |
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pastml
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public |
Ancestral character reconstruction and visualisation for rooted phylogenetic trees.
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2024-09-18 |
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saccharis
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public |
A CAZyme discovery tool. Easily create phylogenetic trees from FASTA files and CAZyme families.
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2024-09-18 |
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alignoth
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public |
A tool for creating alignment plots from bam files
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2024-09-18 |
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eva-sub-cli
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public |
EVA Submission Command Line Interface
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2024-09-18 |
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intarna
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public |
Efficient RNA-RNA interaction prediction incorporating seeding and accessibility of interacting sites
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2024-09-18 |
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iseq
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public |
iSeq is a Bash script that allows you to download sequencing data and metadata from GSA, SRA, ENA, and DDBJ databases
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2024-09-18 |
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ntjoin
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public |
Genome assembly scaffolder using minimizer graphs
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2024-09-18 |
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hybracter
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public |
An automated long-read first bacterial genome assembly pipeline.
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2024-09-18 |
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ropebwt3
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public |
Constructs the FM-index of a large DNA sequence set and searches for matches against the FM-index.
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2024-09-18 |
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augur
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public |
Process pathogen genome data for the Nextstrain platform
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2024-09-17 |
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repeatmasker
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public |
RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
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2024-09-17 |
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veryfasttree
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public |
VeryFastTree -- speeding up the estimation of phylogenies for large alignments through parallelization and vectorization strategies.
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2024-09-17 |
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minute
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public |
MINUTE-ChIP data analysis workflow
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2024-09-17 |
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busco
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public |
Assessment of assembly completeness using Universal Single Copy Orthologs
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2024-09-17 |
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genomepy
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public |
Install and use genomes & gene annotations the easy way!
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2024-09-17 |
