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arrowsam

Genomics datastructures using Apache Arrow

augur

Pipeline components for real-time phylodynamic analysis

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

bam.iobio.io

http://bam.iobio.io

bioinformatics-algorithms-coursera

Solutions to Programming Assignments for Bioinformatics Algorithms (Part 1) on Coursera.org

bioinformatics-one-liners

Bioinformatics one liners from Ming Tang

biomedin214-representations-and-algorithms-for-computational-molecular-biology

Projects in Representations and Algorithms for Computational Molecular Biology

comp-genomics-class

Code and examples for JHU Computational Genomics class

enhancedvolcano

Publication-ready volcano plots with enhanced colouring and labeling

gatkdoc_plugin

A useful plugin for MULTIQC for including plots and stats from GATK DepthOfCoverage

gcluster

A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes

gsalign

GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison

gtex-pipeline

GTEx & TOPMed data production and analysis pipelines

krakentools

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

metaml

ml2022-homework

[機器學習 110-2@NTU] 課程作業

oneliners

Useful bash one-liners for bioinformatics.

plot_transcripts_filtering.py

Script to plot the number of transcripts left after filtering by low expression

ppipilot

Scripts used for a specific pilot project (intended for personal use only)

pycogent

PyCogent: Official repository for software and unit tests

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

scripts

Collection of various scripts

se-mei

Tools for finding mobile element insertions from single-end datasets

sourcetracker2

SourceTracker2

verso

Viral Evolution ReconStructiOn (VERSO). The manuscript of the method is available at: https://www.cell.com/patterns/fulltext/S2666-3899(21)00022-2