Pinned Repositories
7z
Because 7-zip source code was in a 7z archive [mirror]
AAF
alignment and assembly free
abrowse
The Advanced Genome Browser
alphafold
Open source code for AlphaFold.
genomeassembly
Implementation of ToL genome assembly workflows
hisat2
Graph-based alignment (Hierarchical Graph FM index)
MetaTiME
MetaTiME: Meta-components in Tumor immune MicroEnvironment
RoseTTAFold2
samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
USalign
Universal Structure Alignment of Monomeric and Complex Structure of Nucleic Acids and Proteins
wook2014's Repositories
wook2014/genomeassembly
Implementation of ToL genome assembly workflows
wook2014/USalign
Universal Structure Alignment of Monomeric and Complex Structure of Nucleic Acids and Proteins
wook2014/apptainer
Apptainer: Application containers for Linux
wook2014/bcbb
Incubator for useful bioinformatics code, primarily in Python and R
wook2014/bioconda-utils
Utilities for building and managing bioconda recipes
wook2014/ChimeraX
Source code for molecular graphics program UCSF ChimeraX
wook2014/cobs
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
wook2014/deepgoplus
DeepGO with GOPlus axioms
wook2014/foldcomp
Compressing protein structures effectively with torsion angles
wook2014/foldseek
Foldseek enables fast and sensitive comparisons of large structure sets.
wook2014/gatb-core
Core library of the Genome Analysis Toolbox with de-Bruijn graph
wook2014/gvclass
Assigns taxonomy to putative giant virus contigs or metagenome assembled genomes
wook2014/MesquiteCore
The core Mesquite repository
wook2014/MUFFIN
hybrid assembly and differential binning workflow for metagenomics, transcriptomics and pathway analysis
wook2014/nglview
Jupyter widget to interactively view molecular structures and trajectories
wook2014/orthogene
orthogeneš§¬ Interspecies gene mapping
wook2014/PANDA2
PANDA2, which used the cutting-edge graph neural network to model the GO DAG
wook2014/phangorn
Phylogenetic analysis in R
wook2014/philosopher
A complete toolkit for shotgun proteomics data analysis
wook2014/picante
R tools for integrating phylogenies and ecology
wook2014/protein_analysis_tools
USAlign, Rosetta, Amber and other apps script analysis
wook2014/psix
a computational tool for identifying cell-state associated alternative splicing events in scRNA-seq data
wook2014/RFdiffusion
Code for running RFdiffusion
wook2014/rustdesk
Yet another remote desktop software
wook2014/SemiBin
SemiBin: metagenomics binning with self-supervised deep learning
wook2014/SUPPA
SUPPA: Fast quantification of splicing and differential splicing
wook2014/TCGAplot
A number of functions were generated to perform pan-cancer DEG analysis, correlation analysis between gene expression and TMB, MSI, TIME, and promoter methylation. Methods for visualization were provided in order to easily perform integrative pan-cancer multi-omics analysis.
wook2014/veryfasttree
Efficient phylogenetic tree inference for massive taxonomic datasets
wook2014/vsearch
Versatile open-source tool for microbiome analysis
wook2014/zol
zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)