Pinned Repositories
3d-dna
3D de novo assembly (3D DNA) pipeline
alien_index
identify potential non-animal transcripts in animal transcriptomes
alignstats
Comprehensive alignment, whole-genome coverage, and capture coverage statistics.
BamDeal
BamDeal: a comprehensive toolkit for bam manipulation
ensembl-pipeline
Job management for the Ensembl Genebuild pipeline
Mash
Fast genome and metagenome distance estimation using MinHash
redmask
Genome assembly soft-masking using Red (REpeat Detector)
singleCellRNASeq
exploring unsupervised single cell transcriptome analysis
TEanalysis
Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
TEorthology
Script to help assessing the evolutionary history of a TE family
wangzhennan14's Repositories
wangzhennan14/batch_4DTV_calculation
Calculate
wangzhennan14/cactus
Official home of genome aligner based upon notion of Cactus graphs
wangzhennan14/catfasta2phyml
Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file
wangzhennan14/codetta
wangzhennan14/deepsignal2
wangzhennan14/dipcall
Reference-based variant calling pipeline for a pair of phased haplotype assemblies
wangzhennan14/domestication
wangzhennan14/EukSpecies-BRAKER2
Repository with data of eukaryotic species used in BRAKER2 experiments
wangzhennan14/gcpp
wangzhennan14/hal
Hierarchical Alignment Format
wangzhennan14/juicebox_scripts
A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
wangzhennan14/Manual-for-running-IDP-pipeline
IDP pipeline for identifying novel genes and isoforms
wangzhennan14/mapoptics
MapOptics is a lightweight cross-platform tool that enables the user to visualise and interact with the alignment of Bionano optical mapping data and can be used for in depth exploration of hybrid scaffolding alignments.
wangzhennan14/marmoset
wangzhennan14/merfin
Evaluate variant calls and its combination with k-mer multiplicity
wangzhennan14/METEORE
Automatic DNA methylation detection from nanopore tools and their consensus model
wangzhennan14/minigraph
Proof-of-concept seq-to-graph mapper and graph generator
wangzhennan14/NeoLoopFinder
A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
wangzhennan14/newick_utils
shell tools for processing phylogenetic trees
wangzhennan14/pairtools
CLI tools to process mapped Hi-C data
wangzhennan14/PenguinGenomeProject
This repository build with penguins' genome project
wangzhennan14/pin_hic
A Hi-C scaffolding method
wangzhennan14/runBNG
An easy way to run BioNano genomic analysis
wangzhennan14/sonLib
Small general purpose library for C and Python with focus on bioinformatics.
wangzhennan14/TandemTools
Tool for assessing/improving assembly quality in extra-long tandem repeats
wangzhennan14/TE_expression_in_scRNAseq
wangzhennan14/vgp-assembly
VGP repository for the genome assembly working group
wangzhennan14/wormbase-pipeline
Sanger Wormbase Build Pipeline
wangzhennan14/write-a-C-interpreter
Write a simple interpreter of C. Inspired by c4 and largely based on it.
wangzhennan14/yahs
Yet another Hi-C scaffolding tool