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

A 10x faster version base on official trimmomatic. The results of trimmomatic-pigz are exactly the same with official trimmomatic.

Quality Control, Mapping and Reads Count for RNA-Seq Analysis

Whole Exome Sequencing end-to-end pipeline. Starting from whole exome fastq files: Data QC, Adapter Trimming, Reference Genome Alignment, SAM/BAM Validation, Data Recalibration and Variant Calling.

血小板转录组fastq数据处理

Step-by-step approach in the analysis of Rainbow trout DNA from raw reads to population insights using fastqc, trimmomatic, bwa, vcftools, plink, and R.

Bulk Rna-seq Analysis

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

Slurm scripts for analyzing bulk Cutandtag data

Back Up of Trimmomatic for learning and testing/modification. Find Original Code at: https://github.com/usadellab/Trimmomatic

Walks through installation and usage of FASTQC, MultiQC, Trimmomatic, and Salmon for transcriptomic data preprocessing. Includes Grid Engine shell scripts that can be looped over many files in a directory.

A comprehensive workflow for de novo assembly of whole-genome shotgun sequencing data using Velvet, followed by BLAST searches to analyze assembled contigs.

The repository contain directories of projects done during the bioinformatics degree program