sunnycqcn Goto Github PK

eeb5300

for class demo

enrichment-analysis

R codes I uam using for getting from RNA-seq raw count to Pathways

estimate_genome_size.pl

Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish

fastani

Fast Whole-Genome Similarity (ANI) Estimation

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

fastq_clean

Fastq_clean is optimised to batchly clean the NGS data from the IlluminaTM sequencer

fastxtend

A package to perform NGS quality control

fgmp

Fungal Genome Mapping Pipeline

flye

Fast and accurate de novo assembler for single molecule sequencing reads

funannotate

Eukaryotic Genome Annotation Pipeline

fungap

FunGAP: fungal Genome Annotation Pipeline

gaas

Genome Assembly and Annotation Service code

gapfinisher

A reliable gap filling pipeline for draft genomes

gappadder

GAPPadder is tool for closing gaps on draft genomes with short sequencing data

gbs-snp-crop

gc_content_in_sliding_window

Calculate GC% and GC deviation for circular genomes

gccalc

Calculate circos format data of GC content and GC skew from genome data.

genodup-pipeline

This python script can be used to detect Whole-genome duplication (WGD) with the dS based method.

genome-annotation

Annotation using MAKER

genome_history_inference

Scripts to infer the evolutionary history of gene gains and losses by comparing phylogenetic gene tree with a reference species tree

genomescope

Fast genome analysis from unassembled short reads

hal

Hierarchical Alignment Format

hapsolo

Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding

hawk

Hitting associations with k-mers

hera

FROMlianglab

hgt-finder

Program for finding horizontal gene transfer using BLAST result

hgt_pnas_2016

hgtector

Genome-wide prediction of horizontal gene transfer events based on Blast hit distribution statistics

hic-pro

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing

hic_tools

A collection of tools for Hi-C data analysis