|
pathogen-embed
|
public |
Create reduced dimension embeddings for pathogen sequences
|
2024-08-22 |
|
sigprofilerassignment
|
public |
SigProfilerAssignment - Assignment of known mutational signatures to individual samples and individual somatic mutations
|
2024-08-22 |
|
pyseer
|
public |
Sequence Element Enrichment Analysis (SEER), python implementation
|
2024-08-22 |
|
cami-opal
|
public |
OPAL assesses and compares the performance of taxonomic metagenome profilers.
|
2024-08-21 |
|
strdust
|
public |
Tandem repeat genotyper for long reads.
|
2024-08-21 |
|
mquad
|
public |
MQuad: Mixture Model for Mitochondrial Mutation detection in single-cell omics data.
|
2024-08-21 |
|
bbmix
|
public |
BBMix: inference of beta-binomial mixture model
|
2024-08-21 |
|
gmwi2
|
public |
Enhanced Health Status Prediction from Gut Microbiome Taxonomic Profiles
|
2024-08-21 |
|
vcfsim
|
public |
Script for generating simulated VCF's leveraging a coalescent simulating backend.
|
2024-08-21 |
|
ms2query
|
public |
Reliable and fast MS/MS spectral based analogue search
|
2024-08-20 |
|
cellsnp-lite
|
public |
Efficient genotyping bi-allelic SNPs on single cells
|
2024-08-20 |
|
cloci
|
public |
Co-occurrence Locus and Orthologous Cluster Identifier
|
2024-08-20 |
|
xclone
|
public |
Inference of clonal Copy Number Alterations in single cells.
|
2024-08-20 |
|
abritamr
|
public |
Running AMRFinderPlus for MDU
|
2024-08-20 |
|
snakemake-storage-plugin-fs
|
public |
A Snakemake storage plugin that reads and writes from a locally mounted filesystem using rsync
|
2024-08-19 |
|
segalign-galaxy
|
public |
SegAlign: A Scalable GPU-Based Whole Genome Aligner
|
2024-08-19 |
|
segalign-full
|
public |
SegAlign: A Scalable GPU-Based Whole Genome Aligner
|
2024-08-19 |
|
plasnet
|
public |
Clustering, visualising and exploring plasmid networks
|
2024-08-19 |
|
snakemake-interface-storage-plugins
|
public |
This package provides a stable interface for interactions between Snakemake and its storage plugins.
|
2024-08-19 |
|
graphbin
|
public |
GraphBin: Refined binning of metagenomic contigs using assembly graphs
|
2024-08-19 |
|
alen
|
public |
Simple terminal sequence alignment viewer
|
2024-08-19 |
|
pipits
|
public |
PIPITS: An automated pipeline for analyses of fungal internal transcribed spacer (ITS) sequences from the Illumina sequencing platform
|
2024-08-19 |
|
dice
|
public |
Cell lineage reconstruction from single-cell CNA data
|
2024-08-17 |
|
nanocount
|
public |
Transcript abundance estimation from Nanopore *direct-RNA sequencing* datasets
|
2024-08-16 |
|
haplotaglr
|
public |
Haplotagging individual long reads using known haplotype information.
|
2024-08-16 |
|
varfish-server-worker
|
public |
Rust-based tool for the heavy lifting in varfish-server.
|
2024-08-16 |
|
metabinner
|
public |
Ensemble binning method to recover individual genomes from complex microbial communities
|
2024-08-16 |
|
pyrodigal-gv
|
public |
A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
|
2024-08-15 |
|
roadies
|
public |
Reference-free Orthology-free Alignment-free DIscordance aware Estimation of Species tree (ROADIES)
|
2024-08-15 |
|
pia
|
public |
PIA is a toolbox for MS based protein inference and identification analysis.
|
2024-08-14 |
|
snakemake-executor-plugin-googlebatch
|
public |
Snakemake executor plugin for Google Batch
|
2024-08-14 |
|
scar
|
public |
scAR (single-cell Ambient Remover) is a deep learning model for ambient signal removal in droplet-based single cell omicsis.
|
2024-08-14 |
|
pymochi
|
public |
Neural networks to quantify energies, energetic couplings, epistasis and allostery from deep mutational scanning data
|
2024-08-14 |
|
snakemake-storage-plugin-s3
|
public |
A Snakemake storage plugin for S3 API storage (AWS S3, MinIO, etc.)
|
2024-08-14 |
|
singlem
|
public |
SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, and lineage-targeted MAG recovery.
|
2024-08-14 |
|
cellbender
|
public |
A software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data
|
2024-08-13 |
|
tcdemux
|
public |
Demultiplex files and prepare reads for the target capture analysis pipeline.
|
2024-08-13 |
|
pdbx
|
public |
pdbx is a parser module in python for structures of the protein data bank in the mmcif format
|
2024-08-13 |
|
phyloaln
|
public |
PhyloAln: a reference-based multiple sequence alignment tool for phylogeny
|
2024-08-13 |
|
hairsplitter
|
public |
Recovers collapsed haplotypes from a draft assembly and long reads
|
2024-08-12 |
|
cryptkeeper
|
public |
A negative design tool for predicting and visualizing undesired gene expression
|
2024-08-12 |
|
phylofisher
|
public |
A package for the creation, analysis, and visualization of eukaryotic phylogenomic datasets.
|
2024-08-12 |
|
treetime
|
public |
Maximum-Likelihood dating and ancestral inference for phylogenetic trees
|
2024-08-11 |
|
poolsnp
|
public |
PoolSNP is a heuristic SNP caller, which uses an MPILEUP file and a reference genome in FASTA format as inputs.
|
2024-08-10 |
|
pyani
|
public |
pyani provides a package and script for calculation of genome-scale average nucleotide identity.
|
2024-08-09 |
|
dingii
|
public |
Computing the Rearrangement Distance of Natural Genomes.
|
2024-08-09 |
|
resfinder
|
public |
ResFinder identifies acquired antimicrobial resistance genes in total or partial sequenced isolates of bacteria.
|
2024-08-09 |
|
rhotermpredict
|
public |
RhoTermPredict (Barrick Lab Fork)
|
2024-08-09 |
|
promotercalculator
|
public |
Promoter-Calculator (Barrick Lab Fork)
|
2024-08-09 |
|
fraposa-pgsc
|
public |
Tools to perform ancestry projection to a reference dataset within the calculator pipeline (pgsc_calc)
|
2024-08-08 |
