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decom
|
public |
decOM: Similarity-based microbial source tracking for contamination assessment of ancient oral samples using k-mer-based methods
|
2024-11-05 |
|
tiberius
|
public |
Tiberius is a programme for quantifying and analysing genetic sequence data.
|
2024-11-04 |
|
mimeo
|
public |
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
|
2024-11-04 |
|
buscolite
|
public |
buscolite: busco analysis for gene predictions
|
2024-11-04 |
|
nf-test
|
public |
nf-test is a simple test framework for Nextflow pipelines.
|
2024-11-04 |
|
gfftk
|
public |
GFFtk: genome annotation GFF3 tool kit
|
2024-11-04 |
|
eagle2
|
public |
The Eagle software estimates haplotype phase either within a genotyped cohort or using a phased reference panel.
|
2024-11-04 |
|
bioutils
|
public |
miscellaneous simple bioinformatics utilities and lookup tables
|
2024-11-04 |
|
msa4u
|
public |
A simple visualisation tool for Multiple Sequence Alignment.
|
2024-11-03 |
|
seqkit
|
public |
a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
|
2024-11-03 |
|
gsmap
|
public |
gsMap (genetically informed spatial mapping of cells for complex traits)
|
2024-11-02 |
|
taxonkit
|
public |
A Cross-platform and Efficient NCBI Taxonomy Toolkit
|
2024-11-02 |
|
csvtk
|
public |
A cross-platform, efficient, practical CSV/TSV toolkit
|
2024-11-02 |
|
fgsv
|
public |
Tools to find evidence for structural variation.
|
2024-11-02 |
|
fgbio
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
|
2024-11-02 |
|
lotus2
|
public |
LotuS2 is a lightweight complete 16S/18S/ITS pipeline
|
2024-11-02 |
|
fgbio-minimal
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
|
2024-11-02 |
|
phykit
|
public |
PhyKIT is a UNIX shell toolkit for processing and analyzing phylogenomic data.
|
2024-10-31 |
|
tirmite
|
public |
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
|
2024-10-31 |
|
gatk4-spark
|
public |
Genome Analysis Toolkit (GATK4)
|
2024-10-31 |
|
gatk4
|
public |
Genome Analysis Toolkit (GATK4)
|
2024-10-31 |
|
gcnvkernel
|
public |
Python package to support GATK gCNV calling.
|
2024-10-31 |
|
spring
|
public |
Spring is a compression tool for Fastq files
|
2024-10-30 |
|
r-recetox-aplcms
|
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.
|
2024-10-30 |
|
r-mfassignr
|
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.
|
2024-10-30 |
|
ampd-up
|
public |
De novo antimicrobial peptide sequence generation with recurrent neural networks
|
2024-10-30 |
|
doubletdetection
|
public |
Method to detect and enable removal of doublets from single-cell RNA-sequencing.
|
2024-10-30 |
|
phenograph
|
public |
Graph-based clustering for high-dimensional single-cell data.
|
2024-10-29 |
|
stxtyper
|
public |
Accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
|
2024-10-29 |
|
pyscenic
|
public |
Python implementation of the SCENIC pipeline for transcription factor inference from single-cell transcriptomics experiments.
|
2024-10-29 |
|
geosketch
|
public |
Geometry-preserving random sampling.
|
2024-10-29 |
|
pbsv
|
public |
pbsv - PacBio structural variant (SV) calling and analysis tools
|
2024-10-29 |
|
pbtk
|
public |
pbtk - PacBio BAM toolkit
|
2024-10-29 |
|
pbmarkdup
|
public |
pbmarkdup - Mark duplicate reads from PacBio sequencing of an amplified library
|
2024-10-29 |
|
tides-ml
|
public |
Tool for ORF-calling and ORF-classification using ML approaches.
|
2024-10-29 |
|
pgscatalog-utils
|
public |
Utilities for working with PGS Catalog API and scoring files
|
2024-10-29 |
|
flippyr
|
public |
This package is designed to align a PLINK fileset with a FASTA reference genome.
|
2024-10-29 |
|
massdash
|
public |
MassDash is a streamlined DIA mass spec visualization, analysis, optimization, and rapid prototyping.
|
2024-10-29 |
|
pgscatalog.core
|
public |
Core tools for working with polygenic scores (PGS) and the PGS Catalog
|
2024-10-29 |
|
corneto
|
public |
CORNETO: A Unified Framework for Omics-Driven Network Inference
|
2024-10-29 |
|
kaptive
|
public |
Reports information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies.
|
2024-10-28 |
|
altamisa
|
public |
Alternative Python API for accessing ISA-tab files.
|
2024-10-28 |
|
dapcy
|
public |
An sklearn implementation of discriminant analysis of principal components (DAPC) for population genetics.
|
2024-10-28 |
|
lima
|
public |
lima - The PacBio Barcode Demultiplexer
|
2024-10-28 |
|
pbaa
|
public |
PacBio tool to cluster HiFi reads and generate high quality consensus sequences
|
2024-10-28 |
|
hlafreq
|
public |
Download and combine HLA frequency data from multiple studies.
|
2024-10-28 |
|
sopa
|
public |
Spatial-omics pipeline and analysis.
|
2024-10-28 |
|
isoseq
|
public |
Iso-Seq - Scalable De Novo Isoform Discovery
|
2024-10-28 |
|
pbskera
|
public |
PacBio tool to split concatenated read designs
|
2024-10-28 |
|
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 |
