sajjadasaf Goto Github PK

mitofinder

MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data

mitoz

MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes

ng-circos

novoplasty

NOVOPlasty - The organelle assembler and heteroplasmy caller

novowrap

Assembly chloroplast genome and validate conformation

organelle_pba

A software to assemble chloroplast and mitochodrial genomes using PacBio data

pipelines-nextflow

NBIS nextflow pipelines framework

plot_genome_align_fig

Plot genome alignment figure using progressiveMauve & genoPlotR

plotsr

Tool to plot synteny and structural rearrangements between genomes

porechop

adapter trimmer for Oxford Nanopore reads

psonic

The repository serves as a public and official hosting of the pSONIC program (Conover et al., in review).

pygenomeviz

A genome visualization python package for comparative genomics

ragtag

Tools for fast and flexible genome assembly scaffolding and improvement

rnaseq-workflow

A repository for setting up a RNAseq workflow

rnaseq_trinity_tuxedo_workshop

materials for the RNA-Seq workshop on Trinity and Tuxedo, covering de novo and genome-guided transcript assembly and downstream analysis.

run_dbcan

Run_dbcan V2, using genomes/metagenomes/proteomes of any orgaisms(prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.

sajjadasaf

scripts_for_gb

The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".

smallrnaseq

small rna-seq analysis package

sra-tools

SRA Tools

treepl

Phylogenetic penalized likelihood

wengan

An accurate and ultra-fast hybrid genome assembler

wgavarhunter

Fast and accurate genetic variation identification through whole genome alignment

wgdi

Finely identify the whole genome duplication events and generate the genomic homology tables.