lananhle's repositories
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
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