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gcluster
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public |
Gcluster is a simple-to-use tool for visualizing and comparing genome contexts for numerous genomes
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2025-04-16 |
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pneumo-typer
|
public |
Pneumo-Typer is a high-throughput capsule genotype visualization tool with integrated serotype and sequence type prediction for Streptococcus pneumoniae
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2025-04-16 |
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instanovo
|
public |
InstaNovo enables diffusion-powered de novo peptide sequencing in large scale proteomics experiments.
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2025-04-16 |
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annotsv
|
public |
Annotation and Ranking of Structural Variation.
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2025-04-16 |
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concoct
|
public |
Clustering cONtigs with COverage and ComposiTion
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2025-04-16 |
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dna_features_viewer
|
public |
Plot features from DNA sequences (e.g. Genbank) with Python.
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2025-04-16 |
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cdbtools
|
public |
CDB (Constant DataBase) indexing and retrieval tools for FASTA files
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2025-04-16 |
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postmaster
|
public |
Postmaster is a tool for annotating transcriptome alignments with posterior alignment probabilities derived from salmon quantifications.
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2025-04-16 |
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delly
|
public |
Structural variant discovery by integrated paired-end and split-read analysis
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2025-04-16 |
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ampd-up
|
public |
De novo antimicrobial peptide sequence generation with recurrent neural networks
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2025-04-15 |
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replidec
|
public |
Replication Cycle Decipher for Phages.
|
2025-04-15 |
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r-classdiscovery
|
public |
Defines the classes used for "class discovery" problems in the OOMPA project (<http://oompa.r-forge.r-project.org/>). Class discovery primarily consists of unsupervised clustering methods with attempts to assess their statistical significance.
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2025-04-15 |
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r-floral
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public |
Log-ratio Lasso regression for continuous, binary, and survival outcomes with (longitudinal) compositional features. See Fei and others (2024) <doi:10.1016/j.crmeth.2024.100899>.
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2025-04-15 |
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gottcha2
|
public |
Genomic Origin Through Taxonomic CHAllenge (GOTTCHA) v2.
|
2025-04-15 |
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paraclu
|
public |
Paraclu finds clusters in data attached to sequences.
|
2025-04-15 |
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sfld
|
public |
SFLD pre/post-processing
|
2025-04-15 |
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augur
|
public |
Process pathogen genome data for the Nextstrain platform.
|
2025-04-15 |
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buscolite
|
public |
buscolite: busco analysis for gene predictions.
|
2025-04-15 |
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biscuit
|
public |
A utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data.
|
2025-04-15 |
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raxml-ng
|
public |
RAxML Next Generation: faster, easier-to-use and more flexible
|
2025-04-15 |
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ms2rescore
|
public |
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
|
2025-04-15 |
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pilea
|
public |
Pilea: profiling bacterial growth dynamics from metagenomes with sketching
|
2025-04-15 |
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psm-utils
|
public |
Common utilities for parsing and handling peptide-spectrum matches and search engine results.
|
2025-04-15 |
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ervmancer
|
public |
Quantifies HERV short read RNA sequencing expression data
|
2025-04-15 |
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cmat
|
public |
ClinVar Mapping and Annotation Toolkit
|
2025-04-15 |
|
nanomotif
|
public |
Identifying methlyation motifs in nanopore data
|
2025-04-15 |
|
quantms-rescoring
|
public |
PSM rescoring python package with scripts and helpers for the quantms workflow
|
2025-04-15 |
|
bioconductor-deseq2
|
public |
Differential gene expression analysis based on the negative binomial distribution
|
2025-04-15 |
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wally
|
public |
Visualization of aligned sequencing reads and genomic variants.
|
2025-04-15 |
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bioconductor-rtracklayer
|
public |
R interface to genome annotation files and the UCSC genome browser
|
2025-04-15 |
|
bioconductor-genomicalignments
|
public |
Representation and manipulation of short genomic alignments
|
2025-04-15 |
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r-restfulr
|
public |
Models a RESTful service as if it were a nested R list.
|
2025-04-15 |
|
pasta
|
public |
An implementation of the PASTA (Practical Alignment using Sate and TrAnsitivity) algorithm
|
2025-04-15 |
|
genmod
|
public |
Annotate genetic inheritance models in variant files
|
2025-04-15 |
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r-bpcells
|
public |
Efficient operations for single cell ATAC-seq fragments and RNA counts matrices. Interoperable with standard file formats, and introduces efficient bit-packed formats that allow large storage savings and increased read speeds.
|
2025-04-15 |
|
gsmap
|
public |
gsMap (genetically informed spatial mapping of cells for complex traits).
|
2025-04-15 |
|
dnachisel
|
public |
Optimize DNA sequences under constraints.
|
2025-04-15 |
|
rmblast
|
public |
RMBlast is a RepeatMasker compatible version of the standard NCBI BLAST+ suite.
|
2025-04-15 |
|
kmer2stats
|
public |
A tool for creating data files for statistic based on kmers.
|
2025-04-15 |
|
mysterymaster
|
public |
Graphical Oxford Nanopore read demultiplexer
|
2025-04-15 |
|
bakrep-cli
|
public |
BakRep-CLI: a commandline tool for the batch download of BakRep datasets
|
2025-04-15 |
|
mpboot
|
public |
Fast phylogenetic maximum parsimony tree inference and bootstrap approximation.
|
2025-04-15 |
|
vamb
|
public |
Variational autoencoder for metagenomic binning.
|
2025-04-15 |
|
cleanifier
|
public |
A fast lightweight tool to remove contamination using k-mers.
|
2025-04-15 |
|
bbmapy
|
public |
A Python wrapper for BBTools.
|
2025-04-15 |
|
twilight
|
public |
Tall and Wide Alignments at High Throughput.
|
2025-04-14 |
|
vambcore
|
public |
Performant backend functions for the Vamb binning tool
|
2025-04-14 |
|
hictkpy
|
public |
Python bindings for hictk: read and write .cool and .hic files directly from Python
|
2025-04-14 |
|
drep
|
public |
De-replication of microbial genomes assembled from multiple samples.
|
2025-04-14 |
|
deepdetails
|
public |
Deep-learning-based DEconvolution of Tissue profiles with Accurate Interpretation of Locus-specific Signals (DeepDETAILS)
|
2025-04-14 |
