Akhilesh Kaushal's repositories
sscClust
simpler single cell RNAseq data clustering
seurat
R toolkit for single cell genomics
chip-seq-pipeline2
ENCODE ChIP-seq pipeline
long-read-rna-pipeline
ENCODE long read RNA-seq pipeline
awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
open-data-registry
A registry of publicly available datasets on AWS
Artificial-Intelligence-Deep-Learning-Machine-Learning-Tutorials
A comprehensive list of Deep Learning / Artificial Intelligence and Machine Learning tutorials - rapidly expanding into areas of AI/Deep Learning / Machine Vision / NLP and industry specific areas such as Automotives, Retail, Pharma, Medicine, Healthcare by Tarry Singh until at-least 2020 until he finishes his Ph.D. (which might end up being inter-stellar cosmic networks! Who knows! 😀)
scRNA.seq.course
Analysis of single cell RNA-seq data course
gemBS
gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (WGBS).
Data-Science--Cheat-Sheet
Cheat Sheets
Population_Genetics_in_R
A primer for computational tools to analyze genetics of populations in R
python-machine-learning-book-2nd-edition
The "Python Machine Learning (2nd edition)" book code repository and info resource
deep-review
A collaboratively written review paper on deep learning, genomics, and precision medicine
MultimodalPrognosis
Deep Learning with Multimodal Representation for Pancancer Prognosis Prediction
simuPOP
A general-purpose forward-time population genetics simulation environment.
multiple-myeloma-classifier
Multi-class KRAS/NRAS Classifier for Multiple Myeloma
gatk4-cnn-variant-filter
This repo provides workflows that takes advantage of GATKs CNN tool
cellranger
10x Genomics Single Cell 3' Gene Expression and VDJ Assembly
pipeline_accessioning
Accessioning of pipeline data to ENCODE Portal
Repo-2017
Python codes in Machine Learning, NLP, Deep Learning and Reinforcement Learning with Keras and Theano
pancancer
Building classifiers using cancer transcriptomes across 33 different cancer-types
fastqtl
Enhanced version of the FastQTL QTL mapper
dog_days
Using AWS RDS and S3 to store data about my dogs' vaccination and medical records. Creating an R shiny app to keep track of and share records with vets. :dog: :dog:
gene_lists
List of gene lists for genomic analyses.
percy
Scripts for starting permanent, lightweight EC2 instances
gatk
Official code repository for GATK versions 4 and up