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taxonkit
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public |
A Cross-platform and Efficient NCBI Taxonomy Toolkit
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2024-11-02 |
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csvtk
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public |
A cross-platform, efficient, practical CSV/TSV toolkit
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2024-11-02 |
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fgsv
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public |
Tools to find evidence for structural variation.
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2024-11-02 |
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fgbio
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public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
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2024-11-02 |
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lotus2
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public |
LotuS2 is a lightweight complete 16S/18S/ITS pipeline
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2024-11-02 |
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fgbio-minimal
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public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
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2024-11-02 |
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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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2024-10-31 |
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tirmite
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public |
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
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2024-10-31 |
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gatk4-spark
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public |
Genome Analysis Toolkit (GATK4)
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2024-10-31 |
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gatk4
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public |
Genome Analysis Toolkit (GATK4)
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2024-10-31 |
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gcnvkernel
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public |
Python package to support GATK gCNV calling.
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2024-10-31 |
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spring
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public |
Spring is a compression tool for Fastq files
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2024-10-30 |
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r-recetox-aplcms
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public |
apLCMS is a software which generates a feature table from a batch of LC/MS spectra. A modified fork of the original apLCMS by Tianwei Yu.
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2024-10-30 |
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r-mfassignr
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public |
The MFAssignR package was designed for multi-element molecular formula (MF)
assignment of ultrahigh resolution mass spectrometry measurements.
A number of tools for internal mass recalibration, MF assignment, signal-to-noise evaluation,
and unambiguous formula selections are provided.
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2024-10-30 |
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ampd-up
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public |
De novo antimicrobial peptide sequence generation with recurrent neural networks
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2024-10-30 |
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doubletdetection
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public |
Method to detect and enable removal of doublets from single-cell RNA-sequencing.
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2024-10-30 |
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phenograph
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public |
Graph-based clustering for high-dimensional single-cell data.
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2024-10-29 |
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stxtyper
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public |
Accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
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2024-10-29 |
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pyscenic
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public |
Python implementation of the SCENIC pipeline for transcription factor inference from single-cell transcriptomics experiments.
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2024-10-29 |
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geosketch
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public |
Geometry-preserving random sampling.
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2024-10-29 |
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pbsv
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public |
pbsv - PacBio structural variant (SV) calling and analysis tools
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2024-10-29 |
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pbtk
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public |
pbtk - PacBio BAM toolkit
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2024-10-29 |
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pbmarkdup
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public |
pbmarkdup - Mark duplicate reads from PacBio sequencing of an amplified library
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2024-10-29 |
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tides-ml
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public |
Tool for ORF-calling and ORF-classification using ML approaches.
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2024-10-29 |
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pgscatalog-utils
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public |
Utilities for working with PGS Catalog API and scoring files
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2024-10-29 |
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flippyr
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public |
This package is designed to align a PLINK fileset with a FASTA reference genome.
|
2024-10-29 |
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massdash
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public |
MassDash is a streamlined DIA mass spec visualization, analysis, optimization, and rapid prototyping.
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2024-10-29 |
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pgscatalog.core
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public |
Core tools for working with polygenic scores (PGS) and the PGS Catalog
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2024-10-29 |
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corneto
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public |
CORNETO: A Unified Framework for Omics-Driven Network Inference
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2024-10-29 |
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kaptive
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public |
Reports information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies.
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2024-10-28 |
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altamisa
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public |
Alternative Python API for accessing ISA-tab files.
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2024-10-28 |
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dapcy
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public |
An sklearn implementation of discriminant analysis of principal components (DAPC) for population genetics.
|
2024-10-28 |
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lima
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public |
lima - The PacBio Barcode Demultiplexer
|
2024-10-28 |
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pbaa
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public |
PacBio tool to cluster HiFi reads and generate high quality consensus sequences
|
2024-10-28 |
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hlafreq
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public |
Download and combine HLA frequency data from multiple studies.
|
2024-10-28 |
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sopa
|
public |
Spatial-omics pipeline and analysis.
|
2024-10-28 |
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isoseq
|
public |
Iso-Seq - Scalable De Novo Isoform Discovery
|
2024-10-28 |
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pbskera
|
public |
PacBio tool to split concatenated read designs
|
2024-10-28 |
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masurca
|
public |
MaSuRCA (Maryland Super-Read Celera Assembler) genome assembly software. MaSuRCA requires Illumina data, and supports third-generation PacBio/Nanopore MinION reads for hybrid assembly.
|
2024-10-28 |
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shortstack
|
public |
ShortStack: Comprehensive annotation and quantification of small RNA genes
|
2024-10-28 |
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nanoqc
|
public |
Create fastQC-like plots for Oxford Nanopore sequencing data.
|
2024-10-28 |
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haystac
|
public |
Species identification pipeline for both single species and metagenomic samples.
|
2024-10-26 |
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strainy
|
public |
Assembly-based metagenomic strain phasing using long reads
|
2024-10-26 |
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fastqe
|
public |
A emoji based bioinformatics command line tool.
|
2024-10-25 |
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flexiformatter
|
public |
Moving flexiplex barcode and UMI to bam tags
|
2024-10-25 |
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biobb_flexdyn
|
public |
Biobb_flexdyn is a BioBB category for studies on the conformational landscape of native proteins.
|
2024-10-25 |
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blaze2
|
public |
Barcode identification from (Nanopore) Long reads for AnalyZing single-cell gene Expression.
|
2024-10-25 |
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augustus
|
public |
AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and synthenic genomic alignments.
|
2024-10-24 |
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cytoscape
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public |
Cytoscape: an open source platform for network analysis and visualization.
|
2024-10-24 |
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snippy
|
public |
Rapid bacterial SNP calling and core genome alignments
|
2024-10-24 |
