Scy-bio's repositories
3d-dna
3D de novo assembly (3D DNA) pipeline
exonerate
A generic tool for sequence alignment
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.
EiaD_build
Snakemake pipeline to create EiaD dataset for eyeIntegration
CompMap
Compares reads mapped to two reference and splits best alignments
enrichplot
Visualization of Functional Enrichment Result
diamond
Accelerated BLAST compatible local sequence aligner.
HuaSmallTools
Some bioinformic domestic scripts.
ezLncPred
A Python package with integrated lncRNA prediction methods
PybridASE
Pipeline to study allele-specific expression in hybrids
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).
electron-ssr
ssr for ubuntu
OtterGenomeProject
Scripts associated with the sea otter and giant otter genome project (Beichman et al. 2019)
Extract-intron-from-gff3
This script will extract the intron feature gff3 and sequence from gene_exon gff3 and fasta file.
pHASE-Stitcher
a python program to stitch the ReadBack phased haplotypes in F1 hybrids.
Equine_lncRNA
equine lncRNA discovery pipeline
Bioinformatics-Training
Bioinformatics training resources
qdod
Querying disparate oyster datasets
exonerate-gff3
exonerate fork with added gff3 support