Bioinformatic scripts for working on the UiO Abel compute cluster
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Updated
Jun 17, 2020 - Shell
Bioinformatic scripts for working on the UiO Abel compute cluster
📑 A library of example code -aka cheatsheets- for tools I use or analyses I carry out pretty often. This repo doubles as an easy way to find the code I need without going through all my scripts.
Reproducible and scalable technical pipelines for ChIP-Seq and RNA-Seq processing
Source code for "Molecular mechanisms implicated in myogenic differentiation of human alveolar mucosa derived cells" paper
AHTA course project
Salmon indexer wrapper module for GenePattern.
The provided set of bash scripts constitutes a comprehensive RNA-seq analysis workflow, facilitating the processing and analysis of high-throughput sequencing data.
Internship project for mapping reads from RNASeq data and creating contigs from the unmapped reads. The contigs were then BLASTed against a database of virii genomes.
Workshops, Course Schedule and Teaching Assistant Review from my time as a chosen Undergraduate Teaching Assistant for the University of Pittsburgh course, BIOSC1540 - Computational Genomics taught by Dr. Miler Lee.
This repo contains code to pre-process, quant, and analyze RNA-Seq data obtained from human enteriod cell cultures
Mapping of RNAseq data on reference genome using Hisat2 for reduced mismatch penalties
Salmon Alevin (single cell) quantification wrapper module for GenePattern.
DEMUX, ALIGN, DESEQ2 DGE CALLS
Code from my RNA-seq differential gene expression analysis
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