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msoma
|
public |
mSOMA: Somatic Mutation Detection using a betabinomial null model
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2025-01-13 |
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pyfastani
|
public |
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
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2025-01-13 |
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argo
|
public |
Argo: species-resolved profiling of antibiotic resistance genes in complex metagenomes through long-read overlapping
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2025-01-13 |
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gsearch
|
public |
gsearch is an ultra-fast and scalable microbial genome search program based on MinHash-like metrics and graph-based approximate nearest neighbor search
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2025-01-11 |
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mzspeclib
|
public |
HUPO-PSI Spectral library format
|
2025-01-10 |
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cytotrace2-python
|
public |
CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
|
2025-01-10 |
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pyhmmer
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public |
Cython bindings and Python interface to HMMER3.
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2025-01-10 |
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perl-experimental
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public |
Experimental features made easy
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2025-01-09 |
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prokbert
|
public |
ProkBERT is a genomic language model specifically designed for microbiome applications. It leverages the power of machine learning to decipher complex microbial interactions, predict functionalities, and uncover novel patterns in extensive datasets. The ProkBERT model family, built on transfer learning and self-supervised methodologies, capitalizes on the abundant genomic data available.
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2025-01-09 |
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r-spacexr
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public |
Cell type identification and cell type-specific differential expression in spatial transcriptomics
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2025-01-09 |
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glean-gene
|
public |
GLEAN is an unsupervised learning system to integrate disparate sources of gene structure evidence (gene model predictions, EST/protein genomic sequence alignments, SAGE/peptide tags, etc) to produce a consensus gene prediction, without prior training.
|
2025-01-09 |
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r-scroshi
|
public |
scROSHI: robust supervised hierarchical identification of single cells
|
2025-01-09 |
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perl-uri-db
|
public |
Database URIs
|
2025-01-09 |
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spagrn
|
public |
A comprehensive tool to infer TF-centered, spatial gene regulatory networks for the spatially resolved transcriptomics (SRT) data.
|
2025-01-09 |
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relecov-tools
|
public |
Tools for managing and processing of relecov data.
|
2025-01-09 |
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falco
|
public |
falco is a drop-in C++ implementation of FastQC to assess the quality of sequence reads.
|
2025-01-08 |
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sansa
|
public |
Structural variant annotation
|
2025-01-08 |
|
ibridges
|
public |
Package for accessing data and metadata on iRods servers.
|
2025-01-08 |
|
bioconductor-pcaexplorer
|
public |
Interactive Visualization of RNA-seq Data Using a Principal Components Approach
|
2025-01-08 |
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bioconductor-genetonic
|
public |
Enjoy Analyzing And Integrating The Results From Differential Expression Analysis And Functional Enrichment Analysis
|
2025-01-08 |
|
perl-config-general
|
public |
Generic Config Module
|
2025-01-08 |
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isorefiner
|
public |
A refinement tool to identify exon-intron structures of transcript (RNA) isoforms using long reads
|
2025-01-08 |
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samrefiner
|
public |
A program for gathering variant information from a SAM formated files
|
2025-01-08 |
|
primalbedtools
|
public |
A collection of tools for working with primer.bed files
|
2025-01-08 |
|
hybpiper
|
public |
HybPiper is a suite of Python scripts/modules for targeted sequence capture.
|
2025-01-08 |
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gpatch
|
public |
Starting with alignments of contigs to a reference genome, produce a chromosome-scale pseudoassembly by patching gaps between mapped contigs with sequences from the reference."
|
2025-01-07 |
|
biscuit
|
public |
A utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data.
|
2025-01-07 |
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splitcode
|
public |
Flexible parsing, interpretation, and editing of technical sequences
|
2025-01-07 |
|
revbayes
|
public |
Bayesian Phylogenetic Inference Using Graphical Models and an Interactive Model-Specification Language.
|
2025-01-07 |
|
suchtree
|
public |
A python library for doing fast, thread-safe computations on phylogenetic trees
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2025-01-07 |
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annosine2
|
public |
AnnoSINE_v2 - SINE Annotation Tool for Plant and Animal Genomes.
|
2025-01-07 |
|
snapatac2
|
public |
SnapATAC2: Single-cell epigenomics analysis pipeline.
|
2025-01-07 |
|
selene-sdk
|
public |
Framework for developing sequence-level deep learning networks.
|
2025-01-07 |
|
smcpp
|
public |
SMC++ infers population history from whole-genome sequence data.
|
2025-01-07 |
|
stacks
|
public |
Stacks is a software pipeline for building loci from short-read sequences.
|
2025-01-07 |
|
sdm
|
public |
sdm - simple demultiplex tool for FASTQ demultiplexing and dereplication
|
2025-01-07 |
|
strobealign
|
public |
Align short reads using dynamic seed size with strobemers
|
2025-01-07 |
|
proteinortho
|
public |
Proteinortho is a tool to detect orthologous genes within different species.
|
2025-01-07 |
|
gzrt
|
public |
Unofficial build of the gzip Recovery Toolkit aka gzrecover.
|
2025-01-07 |
|
methylmap
|
public |
Plotting tool for population-scale nucleotide modifications
|
2025-01-07 |
|
seq2squiggle
|
public |
End-to-end simulation of nanopore sequencing signals with feed-forward transformers
|
2025-01-07 |
|
pylipid
|
public |
PyLipID - A Python Library For Lipid Interaction Analysis
|
2025-01-07 |
|
megahit
|
public |
MEGAHIT: An ultra-fast single-node solution for large and complex
metagenomics assembly via succinct de Bruijn graph
|
2025-01-07 |
|
divvier
|
public |
A program for removing MSA uncertainty
|
2025-01-07 |
|
wgdi
|
public |
Whole Genome Duplication Identification.
|
2025-01-07 |
|
nanovar
|
public |
Structural variant caller using low-depth long reads
|
2025-01-07 |
|
stringtie
|
public |
StringTie employs efficient algorithms for transcript structure recovery and abundance estimation from bulk RNA-Seq reads aligned to a reference genome.
|
2025-01-07 |
|
bioconductor-zenith
|
public |
Gene set analysis following differential expression using linear (mixed) modeling with dream
|
2025-01-06 |
|
bioconductor-variancepartition
|
public |
Quantify and interpret drivers of variation in multilevel gene expression experiments
|
2025-01-06 |
|
unifeb
|
public |
unifeb is an non-linear dimension reduction/embedding algorithm for UniFrac distance. It is ultra-fast and scalable.
|
2025-01-06 |
