Pinned Repositories
basic_scanpy
basic scanpy run
best-of-ml-python
🏆 A ranked list of awesome machine learning Python libraries. Updated weekly.
biotools
Bioinformatics tools used by me
brick
Python3 based pipeline constructor
cellxgene
An interactive explorer for single-cell transcriptomics data
covTest
covTest package by R Lockhart
cscipipe
Pipeline commands for CSCI
docker_R350
R version 3.5.0 for farm5
docker_scanpy
dockerised version of scanpy.
vjbaskar's Repositories
vjbaskar/basic_scanpy
basic scanpy run
vjbaskar/best-of-ml-python
🏆 A ranked list of awesome machine learning Python libraries. Updated weekly.
vjbaskar/brick
Python3 based pipeline constructor
vjbaskar/cellxgene
An interactive explorer for single-cell transcriptomics data
vjbaskar/cscipipe
Pipeline commands for CSCI
vjbaskar/docker_scanpy
dockerised version of scanpy.
vjbaskar/easyrun
Just a python code to submit jobs in slurm
vjbaskar/encoded
Metadata database for ENCODE project
vjbaskar/intro-machine-learning
vjbaskar/lenhancer
Enhancer identification using LASSO
vjbaskar/minisom
:red_circle: MiniSom is a minimalistic implementation of the Self Organizing Maps
vjbaskar/mudata
Multimodal Data (.h5mu) implementation for Python
vjbaskar/nf-irods-to-fastq
Get CRAMs from iRODS and convert them to fastq
vjbaskar/pairedvoting
vjbaskar/pisan
Sanger specific pipeline for NGS
vjbaskar/PyTorchStepByStep
Official repository of my book: "Deep Learning with PyTorch Step-by-Step: A Beginner's Guide"
vjbaskar/RabbitGastrulation2022
vjbaskar/scanpy
Single-cell analysis in Python. Scales to >1M cells.
vjbaskar/scanpy_functions
Functions that work alongside scanpy anndata objects. Useful functions for single cell analysis
vjbaskar/scrnaseq
Files for sc-RNASeq analysis that I find is useful
vjbaskar/scrnaseq_dash
vjbaskar/scvm
Supplementary tools for analysis of anndata + Scanpy scverse
vjbaskar/scvoting
Paired-voting method
vjbaskar/ShortCake
A docker image for single-cell analysis
vjbaskar/single-cell-10x
vjbaskar/single-cell-tutorial
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
vjbaskar/singularity-rstudio
RStudio Server in a Singularity container
vjbaskar/slurp
Easy slurm submission pipeline
vjbaskar/SSDV
Hum gen data table
vjbaskar/varid
single cell variability calculations