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3d-dna

3D de novo assembly (3D DNA) pipeline

base_2020

bioinformatics-training

Bioinformatics training resources

clash

A rule-based tunnel in Go.

compmap

Compares reads mapped to two reference and splits best alignments

dge_workshop

diamond

Accelerated BLAST compatible local sequence aligner.

eiad_build

Snakemake pipeline to create EiaD dataset for eyeIntegration

electron-ssr

ssr for ubuntu

enrichplot

Visualization of Functional Enrichment Result

equine_lncrna

equine lncRNA discovery pipeline

exonerate

A generic tool for sequence alignment

exonerate-gff3

exonerate fork with added gff3 support

extract-intron-from-gff3

This script will extract the intron feature gff3 and sequence from gene_exon gff3 and fasta file.

ezlncpred

A Python package with integrated lncRNA prediction methods

haplotype-resolved-potato-genome

The pipelines were built in the project resolving the genome of a diploid potato. Most of the scripts were sepcially designed to perform the analyses in the paper 'Haplotype-resolved genome analyses of a heterozygous diploid potato' (under review).

huasmalltools

Some bioinformic domestic scripts.

intro-to-rnaseq-hpc-orchestra

This repository has teaching materials for a 2-day Introduction to RNA-sequencing data analysis workshop using the Orchestra Cluster.

my_wgcna

nvim

The Ultimate NeoVim Config for Colemak Users

ottergenomeproject

Scripts associated with the sea otter and giant otter genome project (Beichman et al. 2019)

phase-stitcher

a python program to stitch the ReadBack phased haplotypes in F1 hybrids.

pybridase

Pipeline to study allele-specific expression in hybrids

qdod

Querying disparate oyster datasets

scripts

In-house scripts for data processing and analysis