Ambarish Kumar's repositories
archaeopteryx-js
Archaeopteryx.js is a software tool for the visualization and analysis of highly annotated phylogenetic trees.
biocluster
Tutorial on building a computing cluster for bioinformatics
biomarkers
Biomarker collection.
chemical
A word2vec model to find similar chemical compound names
climate
OpenAccess papers mined for Climate Change
CMForestPlots
Things for managing the ContentMine forest plot functionality in normal
Data-Science
Repository will contain example code snippet for all most all machine learning algorithms and statistical testing all implemented into Python and R
dplyr
dplyr: A grammar of data manipulation
EssOilDB
Restructuring of Essential Oil Database
forestplots
forest plots and software to analyse them
galwayecr
Material for invited talk/demo at NUI Galway 2019-04-11
gatk
Official code repository for GATK versions 4 and up
gatk4-jupyter-notebook-tutorials
This repository contains Jupyter Notebooks containing GATK Best Practices Workflows
gatk4-somatic-cnvs
Workflows for somatic copy number variant discovery with GATK4
gatk4-somatic-snvs-indels
Workflows for somatic short variant discovery with GATK4
google-maps-services-python
Python client library for Google Maps API Web Services
haml
HLA Antibody Markup Language - For antibody assay results and expert interpretation
MayomicsVC
Variant Calling Pipeline in Cromwell/WDL
openNotebook
Communal methods and links to sub-projects using OpenNotebookScience
optogenetics
AMI tools for searching for optogenetic papers (HT James Sanders)
quantumchem
searching Open Access literature for quantum chemistry (inspiration Leonie Mueck)
simulatedEbolaDataset
Repository contains simulated ebola RNASEQ reads genarated from ebola reference genome with manually called mutations.
VariantSpark
machine learning for genomic variants
xmlopensci
XML Tools and resources for Open Science