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captus
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public |
Captus: Assembly of Phylogenomic Datasets from High-Throughput Sequencing data
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2025-01-29 |
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bactopia-py
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public |
A Python package for working with Bactopia
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2025-01-29 |
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pairix
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public |
2D indexing on bgzipped text files of paired genomic coordinates
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2025-01-28 |
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metabolabpy
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public |
Python package to process 1D and 2D NMR spectroscopic data for metabolomics and tracer-based metabolism analysis.
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2025-01-28 |
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egglib
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public |
Evolutionary Genetics and Genomics Library. EggLib is a C++/Python library and program package for evolutionary genetics and genomics. Main features are sequence data management, sequence polymorphism analysis, and coalescent simulations. EggLib is a flexible Python module with a performant underlying C++ library and allows fast and intuitive development of Python programs and scripts.
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2025-01-28 |
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mgnify-pipelines-toolkit
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public |
Collection of scripts and tools for MGnify pipelines.
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2025-01-28 |
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picrust2
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public |
PICRUSt: Phylogenetic Investigation of Communities by Reconstruction of Unobserved States
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2025-01-28 |
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im2deep
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public |
Framework for prediction of collisional cross-section of peptides.
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2025-01-28 |
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curves
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public |
CURVES+: Conformational analysis of single nucleic acid structures or of molecular dynamics trajectories
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2025-01-28 |
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libcifpp
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public |
Library containing code to manipulate mmCIF and PDB files.
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2025-01-28 |
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get_pangenes
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public |
A versatile software package for calling pangenes from whole genome alignments
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2025-01-28 |
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kegg-pathways-completeness
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public |
The tool counts completeness of each KEGG pathway for protein sequences.
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2025-01-28 |
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snk-cli
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public |
Dynamically generate CLIs from Snakemake configuration files
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2025-01-28 |
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gempipe
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public |
gempipe is a tool for the reconstruction of strain-specific genome-scale metabolic models.
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2025-01-28 |
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t1k
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public |
T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with RNA-seq, WGS or WES data.
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2025-01-28 |
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pybigwig
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public |
A python extension written in C for quick access to bigWig files.
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2025-01-28 |
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ms2pip
|
public |
MS²PIP: MS² Peak Intensity Prediction
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2025-01-28 |
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eggnog-mapper
|
public |
Fast genome-wide functional annotation through orthology assignment.
|
2025-01-28 |
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regenie
|
public |
Regenie is a C++ program for whole genome regression modelling of large genome-wide association studies (GWAS).
|
2025-01-27 |
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pangolin-data
|
public |
Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
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2025-01-27 |
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dnachisel
|
public |
Optimize DNA sequences under constraints.
|
2025-01-27 |
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earlgrey
|
public |
Earl Grey: A fully automated TE curation and annotation pipeline
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2025-01-27 |
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nf-core
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public |
Python package with helper tools for the nf-core community.
|
2025-01-27 |
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haplogrep3
|
public |
A tool for mtDNA haplogroup classification.
|
2025-01-27 |
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ngs-bits
|
public |
Short-read sequencing tools
|
2025-01-27 |
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tgsgapcloser
|
public |
A gap-closing software tool that uses error-prone long reads generated by third-generation-sequence techniques (Pacbio, Oxford Nanopore, etc.) or preassembled contigs to fill N-gap in the genome assembly.
|
2025-01-27 |
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poppunk
|
public |
PopPUNK (POPulation Partitioning Using Nucleotide Kmers)
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2025-01-27 |
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frag_gene_scan_rs
|
public |
Rust implementation of the gene prediction model for short and error-prone reads
|
2025-01-27 |
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unicycler
|
public |
Hybrid assembly pipeline for bacterial genomes
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2025-01-27 |
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miniasm
|
public |
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
|
2025-01-27 |
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runjob
|
public |
Manage jobs or pipeline of bioinfomation.
|
2025-01-27 |
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perl-io-interactive
|
public |
Utilities for interactive I/O
|
2025-01-27 |
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biobb_morph
|
public |
biobb_morph is the Biobb module collection to perform molecular dynamics simulations using the morph MD suite.
|
2025-01-27 |
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notramp
|
public |
Super-fast Normalization and Trimming for Amplicon Sequencing Data (Long- and Short-read)
|
2025-01-27 |
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eastr
|
public |
Tool for emending alignments of spuriously spliced transcript reads.
|
2025-01-26 |
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py2bit
|
public |
A package for accessing 2bit files using lib2bit
|
2025-01-26 |
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pybarrnap
|
public |
Python implementation of barrnap (Bacterial ribosomal RNA predictor).
|
2025-01-25 |
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flexynesis
|
public |
A deep-learning-based multi-omics bulk sequencing data integration suite with a focus on (pre-)clinical endpoint prediction.
|
2025-01-25 |
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autobigs-cli
|
public |
A CLI tool to rapidly fetch fetch MLST profiles given sequences for various diseases.
|
2025-01-25 |
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strangepg
|
public |
Strange pangenome-scale interactive graph visualizer
|
2025-01-24 |
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solvebio
|
public |
The SolveBio Python client
|
2025-01-24 |
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rbpbench
|
public |
Evaluate CLIP-seq and other genomic region data using a comprehensive collection of known RBP binding motifs
|
2025-01-24 |
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gdc-client
|
public |
GDC Data Transfer Tool
|
2025-01-24 |
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pyopenms
|
public |
python bindings for OpenMS, an open-source software C++ library for LC-MS data management and analyses
|
2025-01-24 |
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cat
|
public |
CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
|
2025-01-24 |
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viroconstrictor
|
public |
ViroConstrictor is a flexible pipeline for analysis of targeted viral sequencing data
|
2025-01-24 |
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varfish-cli
|
public |
Command line interface to VarFish via REST API
|
2025-01-24 |
|
amdirt
|
public |
amdirt: AncientMetagenomeDir Toolkit
|
2025-01-24 |
|
bali-phy
|
public |
Phylogenetics - Bayesian estimation of phylogenies and multiple sequence alignments.
|
2025-01-24 |
|
mavenn
|
public |
MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect.
|
2025-01-24 |
