kaiqiangliu Goto Github PK

bio-playground

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

bioperl-live

Core BioPerl 1.x code

canu

A single molecule sequence assembler for genomes large and small.

ergatis

Ergatis is a web-based utility that is used to create, run, and monitor reusable computational analysis pipelines.

gc-content-in-sliding-window-

Calculate GC% and GC deviation for circular genomes

informatics-tools

Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files

metagenome_assembly

Scripts to analyse and process the files produced in the MSc Project "A comparison of metagenomic assembly software"

miscperlscripts

Small collection of random useful perl scripts

mitoz

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

mosdepth

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

n50-gc-status

neo

noctua entity ontology

nextflow-annotate

Workflows I find helpful for fungal genome annotation

parsing-repeatmasker-outputs

Few scripts facilitating the extraction of info from Repeat Masker .out files

phtools

various tools. Mostly shell, perl and R

shiny

Shiny app by R for visualization and analysis

stampython

Telegram bot for controlling karma on telegram group chats

takifugu_project

The pipelines and scripts used in Takifugu comparative genomics project