WebAssembly modules for genomics

Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.

Detecting contamination in NGS data and multi-species analysis

Here we are going to discuss variant calling on human datasets using GATK Best practices pipeline

Snakemake pipeline for Popoolation and Popoolation2

Align short RNA seqeuncing reads to determine the length of of overhang

🦠Research project in Bioinformatics Institute 2023-2024

Bioconductor package: an R wrapper for Bowtie2 and AdapterRemoval

Panlineal is capable of generating Vgs from multiple genome alignments in form of lineal pan-genome. Combining short reads data, it can also detect the the allelism conduced by PAVs combinations of vast samples in a species.

This is a code tutorial for rna or dna sequence mapping by myself-RyanYip

A pipeline to run mapping, mash screen and assembly methods for pATLAS.

Nextflow Alignment Pipeline

Some scripts to make your bioinformatics analyses reproducible and a bit easy 🤓

nextflow ATACseq pipeline for GG02

automating find_circ

Script to obtain plasmid id from WGS data using bowtie2 to map

RNA-seq code with Bowtie alignment and generating strain-specific counts using Emase

This is a repository for a seminar on Bowtie2 and its use of the Burrows-Wheeler Transform and FM-index in short-read sequence mapping.

Bowtie2 v2.5.2 Dockerfile Native for Apple M1+ Silicon (ARM64) and Intel/AMD (x86_64) Containers