Upalabdha's repositories
star_protocols_wes3x
Functional code templates for the Star Protocols paper describing consolidated WES variant calling with 3 callers
Analyses_Pipelines
Analyses pipelines that I use for my work
applied-computational-genomics
Applied Computational Genomics Course at UU: Spring 2020
awesome-courses
:books: List of awesome university courses for learning Computer Science!
awesome-genome-visualization
A list of interesting genome browser or genome-browser-like implementations
awesome-ggplot2
A curated list of awesome ggplot2 tutorials, packages etc.
awesome-sequencing-tech-papers
A collection of publications on comparison of high-throughput sequencing technologies.
bioicons
A library of free open source icons for science illustrations in biology and chemistry
biovcnet.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
CLASS_2021
Statistical and computational analysis of the human genome
Crickets_Genome_Annotation
Gennome annotation scripts for the crickets Gryllus bimaculatus and Laupala kohalensis.
data-science-interview-questions-and-answers
Data science interview questions with answers. Not ideally (yet)
DeepSeqAnalysis
Course materials for a graduate class in applied bioinformatics for biologists
FastANI_heatmap
This repository contains R code for building a heatmap and histogram with the output of FastANI
Gene-Synteny-Analysis
Uses MCscan (python version) to create micro- and macro-synteny plots
genomescope
Fast genome analysis from unassembled short reads
GermlineMutationCalling
An adaptable Snakemake workflow which uses GATKs best practice recommendations to perform germline mutation calling starting with BAM files
HCGS-BASH-tutorial
Getting started on a server
literature_analysis_pubmed
Part of Pat's Code Club series that started 2022-05-12
MGCplotter
Microbial Genome Circular plotting tool using Circos
modulome-workflow
Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA
Promotech
Machine-learning-based general bacterial promoter prediction tool.
R-for-bioinformatics
R course for bioinformatics
SDG_LAB_DB
Data,Scripts and other NGS analysis materials for SDG LAB
shape-based-TF-binding-prediction
A workflow to learn protein-DNA binding specificity from experimental peak data based on DNA shape.
tidy-ncbi-genome-download
Collect and filter genomes downloaded using [ncbi-genome-downloa](https://github.com/kblin/ncbi-genome-download), change file names to safe names for down-stream processing (phylogenetic tree making etc.)
tormes
Making whole bacterial genome sequencing data analysis easy
training-collection
Collection of bioinformatics training materials