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bioconda-repodata-patches
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public |
generate tweaks to index metadata, hosted separately from anaconda.org index
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2025-02-18 |
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met4j
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public |
Met4J is an open-source Java library dedicated to the structural analysis of metabolic networks
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2025-02-17 |
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genin2
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public |
Genin2 is a lightining-fast bioinformatic tool to predict genotypes for H5 viruses belonging to the European clade 2.3.4.4b
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2025-02-17 |
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souporcell
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public |
Clustering scRNAseq by genotypes.
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2025-02-17 |
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skder
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public |
skDER & CiDDER: efficient & high-resolution dereplication methods for microbial genomes
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2025-02-17 |
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fastahack
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public |
No Summary
|
2025-02-17 |
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pybiolib
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public |
BioLib Python Client
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2025-02-17 |
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wgatools
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public |
A Rust library and tools for whole genome alignment files.
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2025-02-17 |
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metafx
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public |
MetaFX (METAgenomic Feature eXtraction) is a library for feature extraction from whole-genome metagenome sequencing data and classification of groups of samples.
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2025-02-17 |
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s4pred
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public |
Accurate prediction of a protein's secondary structure from its amino acid sequence
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2025-02-17 |
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bionumpy
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public |
Library for working with biological sequence data as numpy arrays.
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2025-02-17 |
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marti
|
public |
Metagenomic Analysis in Real Time
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2025-02-17 |
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vcflib
|
public |
Command-line tools for manipulating VCF files.
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2025-02-17 |
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r-pathfindr
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public |
Enrichment analysis enables researchers to uncover mechanisms underlying a phenotype. However, conventional methods for enrichment analysis do not take into account protein-protein interaction information, resulting in incomplete conclusions. pathfindR is a tool for enrichment analysis utilizing active subnetworks. The main function identifies active subnetworks in a protein-protein interaction network using a user-provided list of genes and associated p values. It then performs enrichment analyses on the identified subnetworks, identifying enriched terms (i.e. pathways or, more broadly, gene sets) that possibly underlie the phenotype of interest. pathfindR also offers functionalities to cluster the enriched terms and identify representative terms in each cluster, to score the enriched terms per sample and to visualize analysis results. The enrichment, clustering and other methods implemented in pathfindR are described in detail in Ulgen E, Ozisik O, Sezerman OU. 2019. pathfindR: An R Package for Comprehensive Identification of Enriched Pathways in Omics Data Through Active Subnetworks. Front. Genet. <doi:10.3389/fgene.2019.00858>.
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2025-02-17 |
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svaba
|
public |
Structural variation and indel detection by local assembly
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2025-02-17 |
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neffy
|
public |
A Python interface of NEFFy C++ tool: NEFF Calculator and MSA File Converter
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2025-02-17 |
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plothic
|
public |
Plot Whole genome Hi-C contact matrix heatmap
|
2025-02-17 |
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predictosaurus
|
public |
Predictosaurus is a command-line tool designed for uncertainty-aware haplotype-based genomic variant effect prediction.
|
2025-02-17 |
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circtools
|
public |
circtools - a circular RNA toolbox.
|
2025-02-17 |
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annembed
|
public |
annembed is an ultra-fast and scalable non-linear dimension reduction/embedding algorithm (similar to UMAP or t-SNE) for large-scale biological data
|
2025-02-17 |
|
genomad
|
public |
Identification of mobile genetic elements
|
2025-02-17 |
|
seg-suite
|
public |
The seg suite provides tools for manipulating segments, alignments, and annotations of sequences.
|
2025-02-17 |
|
clipkit
|
public |
Alignment trimming software for phylogenetics.
|
2025-02-17 |
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hmftools-cobalt
|
public |
Calculate read-depth counts and GC ratios to use in PURPLE.
|
2025-02-17 |
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hmftools-amber
|
public |
Generates a tumor BAF file for use in PURPLE.
|
2025-02-17 |
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hmftools-bam-tools
|
public |
Rapidly process BAMs for various tasks.
|
2025-02-17 |
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sdrf-pipelines
|
public |
Translate, convert SDRF to configuration pipelines
|
2025-02-16 |
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truvari
|
public |
Structural variant comparison tool for VCFs
|
2025-02-16 |
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fastoma
|
public |
FastOMA - a package to infer orthology information among proteomes
|
2025-02-16 |
|
galaxy-data
|
public |
The Galaxy models, datatype framework, and datatype implementations.
|
2025-02-16 |
|
tb-profiler
|
public |
Profiling tool for Mycobacterium tuberculosis to detect drug resistance and lineage from sequencing data
|
2025-02-16 |
|
galaxy-schema
|
public |
The Galaxy API schema objects.
|
2025-02-16 |
|
sevenbridges-python
|
public |
SBG API python client bindings
|
2025-02-16 |
|
pronto
|
public |
Python frontend to ontologies.
|
2025-02-16 |
|
pbsim3
|
public |
A simulator for all types of Pacific Biosciences (PacBio) and Oxford Nanopore Technologies (ONT) long reads
|
2025-02-15 |
|
tir-learner
|
public |
An ensemble pipeline for terminal inverted repeat (TIR) transposable elements annotation.
|
2025-02-15 |
|
hitac
|
public |
A hierarchical taxonomic classifier for fungal ITS sequences
|
2025-02-15 |
|
egap
|
public |
EGAP pipeline for genome assembly and QC analysis
|
2025-02-15 |
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snakemake-executor-plugin-slurm-jobstep
|
public |
A Snakemake executor plugin for running srun jobs inside of SLURM jobs (meant for internal use by snakemake-executor-plugin-slurm)
|
2025-02-15 |
|
metabolights-utils
|
public |
MetaboLights open metabolomics data repository command line interface (CLI), common MetaboLights data models, utility methods and classes.
|
2025-02-15 |
|
vitap
|
public |
Viral Taxonomic Assignment Pipeline
|
2025-02-15 |
|
chopper
|
public |
A rust command line for filtering and trimming long reads.
|
2025-02-15 |
|
seismic-rna
|
public |
SEISMIC-RNA software by the Rouskin Lab.
|
2025-02-15 |
|
snp2cell
|
public |
A package for finding enriched regulatory networks from GWAS and single cell data.
|
2025-02-15 |
|
r-metacoder
|
public |
A set of tools for parsing, manipulating, and graphing data classified by a hierarchy (e.g. a taxonomy).
|
2025-02-14 |
|
snakemake-executor-plugin-slurm
|
public |
A Snakemake executor plugin for submitting jobs to a SLURM cluster.
|
2025-02-14 |
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ucsc-cell-browser
|
public |
A browser for single-cell data, main site at http://cells.ucsc.edu. UCSC Cellbrowser, an interactive browser for single cell data. Includes importers and basic pipelines for text files, Seurat, Scanpy and Cellranger. All Javascript - does not require a server backend.
|
2025-02-14 |
|
galaxy-objectstore
|
public |
The Galaxy object store framework and default implementations
|
2025-02-14 |
|
vsearch
|
public |
A versatile open source tool for metagenomics (USEARCH alternative)
|
2025-02-14 |
|
macs2
|
public |
Model Based Analysis for ChIP-Seq data
|
2025-02-14 |
