Saket Choudhary

fos-proposals. :gift_heart: :penguin: Archive of GSoC proposals

pysradb. Package for fetching metadata and downloading data from SRA/ENA/GEO

gencode_regions. Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

rna-seq-snakemake. Snakemake based pipeline for RNA-Seq analysis

pyseqlogo. Python package to plot sequence logos

pySCTransform. Python package to perform normalization and variance-stabilization of single-cell data

hatex. 'h'omeworks, 'a'ssignments 'tex' for courses at USC

riboraptor. Tool for ribo-seq analysis. Most of the functionality moved to ribotricer (https://github.com/smithlabcode/ribotricer)

usc-vpn-linux-setup. Instructions for accessing USC's VPN on linux

moca. :m: Tool for motif conservation analysis

notebooks. :green_book: Jupyter notebooks for demo/projects, now that github supports them

scilab_cloud. :cloud: Scilab on Cloud

open-ehr-django. An Electronic Health Records System in *pure* Django.

kicad-ngspice. :electric_plug: Some tweaks integrated in a python script to make kiCAD and ngspice compatible to each other

scRNA_NB_comparison. Scripts to reproduce the analyses in the paper "Comparison and evaluation of statistical error models for scRNA-seq"

dcpp.js. :wrench: DC++ straight from your Browser! No Sharing Required!

motif-logos-matplotlib. Motif logos in matplotlib (POC)

sklearn-hogsvd. Scikit-learn compatible python implementation of HO-GSVD

pivotal-tracker-email-wrapper. :mailbox_closed: Ruby Wrapper to assign tasks on pivotal through an email

multiZ-scripts. Snakefiles/Python scripts to create conservation tracks

covmuller. Covmuller is an R-package designed for analysis of SARS-CoV-2 sequencing metadata deposited on GISAID

variational-autoencoders-tf-eager. Variational autoencoders using Tensorflow's eager API

bio-tricks. :syringe: Custom bio* stuff

EE-546-project. Jupyter Notebook

biojs-genetic-variation-viewer. :recycle: BioJS1.0 Component for visualising human gentic variations, GSoC2014

galaxy_tools. My Galaxy Wrappers

blog. Jupyter Notebook

pyFLGLM. Jupyter Notebook

rnn-cds-prediction. Prediction of CDS regions using RNNs

pyvirchow. Tools for whole slide image processing and classification

blog-archive. :floppy_disk: => :satellite:

brewer. Homebrew Personal recipes

ribo-seq-snakemake. Snakemake pipeline for Ribo-Seq analysis

review. Review of Scientific Papers

ug_acads. UG Acads IIT B Open Sourced !

iclip-seq-snakemake. Snakemake based pipeline for analysing iCLIP-Seq data

sctransform. R package for modeling single cell UMI expression data using regularized negative binomial regression

pyfastnbfit. Fast fitting for counts data using Minka's algorithm

covid19bharat_data. India's district level covid19 data. This is the continued effort carry forwarded by what covid19india.org's team had initiated

re-ribo-smk. Snakemake pipeline for end-to-end Ribo-seq analysis

riddler. 538 -- We all need stimulants.

comp-bio. C++

predicting-cds-rnn. Jupyter Notebook

dotfiles. Collection of dotfiles

statsmodels. Statsmodels: statistical modeling and econometrics in Python

math-screening-solutions. :green_book: :mortar_board: Solutions for MATH Screening Exams

points-of-significance. Python notebooks for Nature's Point of Significance collection: http://www.nature.com/collections/qghhqm/pointsofsignificance

overleaf-cloner. Clone your Overleaf.com projects at once!