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sccmec
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public |
A tool for typing SCCmec cassettes in assemblies
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2024-08-25 |
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pasty
|
public |
A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates
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2024-08-25 |
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quantms-utils
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public |
Python package with scripts and helpers for the quantms workflow
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2024-08-25 |
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jvarkit
|
public |
Java utilities for Bioinformatics.
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2024-08-25 |
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camlhmp
|
public |
Classification through yAML Heuristic Mapping Protocol
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2024-08-25 |
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adapterremoval
|
public |
The AdapterRemoval v2 tool for merging and clipping reads.
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2024-08-25 |
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bioconda-repodata-patches
|
public |
generate tweaks to index metadata, hosted separately from anaconda.org index
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2024-08-25 |
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metacerberus-lite
|
public |
MetaCerberus with reduced dependencies: Versatile Functional Ontology Assignments for Metagenomes via Hidden Markov Model (HMM) searching with environmental focus of shotgun meta'omics data
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2024-08-24 |
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metacerberus
|
public |
Versatile Functional Ontology Assignments for Metagenomes via Hidden Markov Model (HMM) searching with environmental focus of shotgun meta'omics data
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2024-08-24 |
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spatialleiden
|
public |
Implementation of multiplex Leiden for analysis of spatial omics data.
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2024-08-24 |
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orthanq
|
public |
Uncertainty aware HLA typing and general haplotype quantification
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2024-08-24 |
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r-mutsigextractor
|
public |
Extract mutational signatures from VCF files
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2024-08-24 |
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yacht
|
public |
YACHT is a mathematically rigorous hypothesis test for the presence or absence of organisms in a metagenomic sample, based on average nucleotide identity (ANI).
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2024-08-24 |
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minimap2
|
public |
A versatile pairwise aligner for genomic and spliced nucleotide sequences.
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2024-08-24 |
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perl-graph
|
public |
a Perl extension for keeping data partially sorted
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2024-08-24 |
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mvip
|
public |
MVP v.1.0, a user-friendly pipeline written in Python and providing a simple framework to perform standard viromics analyses. MVP combines multiple tools to enable viral genome identification, characterization of genome quality, filtering, clustering, taxonomic and functional annotation, genome binning, and comprehensive summaries of results that can be used for downstream ecological analyses. Overall, MVP provides a standardized and reproducible pipeline for both extensive and robust characterization of viruses from large-scale sequencing data including metagenomes, metatranscriptomes, viromes and isolate genomes.
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2024-08-24 |
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hmmer
|
public |
Biosequence analysis using profile hidden Markov models
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2024-08-24 |
|
pling
|
public |
Pling computes the rearrangement distance between plasmids and clusters on their basis
|
2024-08-24 |
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bwa-aln-interactive
|
public |
Version of the BWA aln read mapper for interactive alignment.
|
2024-08-24 |
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tribal
|
public |
TRIBAL is a package to infer B cell lineage trees from single-cell RNA sequencing data.
|
2024-08-24 |
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biobox_add_taxid
|
public |
CAMI amber utility script for adding the taxid output from GTDB and BAT
|
2024-08-23 |
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dfast_qc
|
public |
DFAST_QC: Taxonomy and completeness check for prokaryotic genomes
|
2024-08-23 |
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abnumber
|
public |
AbNumber - Antibody numbering using ANARCI
|
2024-08-23 |
|
snakemake-executor-plugin-slurm
|
public |
A Snakemake executor plugin for submitting jobs to a SLURM cluster.
|
2024-08-23 |
|
gapseq
|
public |
Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
|
2024-08-23 |
|
gxformat2
|
public |
Galaxy Workflow Format 2 Descriptions
|
2024-08-23 |
|
bpipe
|
public |
Bpipe - a tool for running and managing bioinformatics pipelines
|
2024-08-23 |
|
mess
|
public |
Snakemake pipeline for simulating shotgun metagenomic samples
|
2024-08-23 |
|
relion
|
public |
Image-processing software for cryo-electron microscopy
|
2024-08-22 |
|
mimsi
|
public |
A Deep Mulitple Instance Learning Classifier for Microsatellite Instability
|
2024-08-22 |
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popoolation2
|
public |
PoPoolation2 allows to compare allele frequencies for SNPs between two or more populations and to identify significant differences.
|
2024-08-22 |
|
art
|
public |
No Summary
|
2024-08-22 |
|
strangepg
|
public |
Strange pangenome-scale interactive graph visualizer
|
2024-08-22 |
|
ppanggolin
|
public |
PPanGGOLiN: Depicting microbial species diversity via a Partitioned PanGenome Graph
|
2024-08-22 |
|
vsnp3
|
public |
Rapidly call, validate, and compare SNPs from FASTQ files in a timely manner utilizing large data sets.
|
2024-08-22 |
|
pytximport
|
public |
pytximport - gene count estimation from alignment-free quantification
|
2024-08-22 |
|
augur
|
public |
Process pathogen genome data for the Nextstrain platform
|
2024-08-22 |
|
harpy
|
public |
Process raw haplotagging data, from raw sequences to phased haplotypes.
|
2024-08-22 |
|
pybiolib
|
public |
BioLib Python Client
|
2024-08-22 |
|
panfeed
|
public |
Compute gene-cluster specific k-mers over a pangenome
|
2024-08-22 |
|
prymer
|
public |
Python Primer Design Library
|
2024-08-22 |
|
snakemake-executor-plugin-tes
|
public |
A Snakemake executor plugin for submitting jobs to a GA4GH TES cluster.
|
2024-08-22 |
|
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 |
|
perl-mce
|
public |
Many-Core Engine for Perl providing parallel processing capabilities
|
2024-08-22 |
|
perl-mce-shared
|
public |
MCE extension for sharing data supporting threads and processes
|
2024-08-22 |
|
sawfish
|
public |
Structural variant discovery and genotyping from mapped PacBio HiFi data
|
2024-08-22 |
|
r-buencolors
|
public |
R utility package for color mapping and plot aesthetics.
|
2024-08-22 |
|
pyseer
|
public |
Sequence Element Enrichment Analysis (SEER), python implementation
|
2024-08-22 |
|
pbstarphase
|
public |
A phase-aware pharmacogenomic diplotyper for PacBio sequencing data
|
2024-08-21 |
