hiraksarkar
Researcher in ML, Computational Biology. Past affiliation: Ph.D in computer science from University of Maryland
Princeton UniversityPrinceton, NJ
Pinned Repositories
minnow
pufferfish
An efficient index for the colored, compacted, de Bruijn graph
quark
semi-reference-based short read compression
RapClust
Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
terminus
hiraksarkar.github.io
hiraksarkar's Repositories
hiraksarkar/hiraksarkar.github.io
hiraksarkar/alevinQC
Create QC and summary reports for Alevin output
hiraksarkar/awesome_spatial_omics
tools and notes for spatial omics
hiraksarkar/Baysor
Bayesian Segmentation of Spatial Transcriptomics Data
hiraksarkar/BaysorAnalysis
Analysis for the Baysor paper
hiraksarkar/Books
My book list
hiraksarkar/byorgey_cv
hiraksarkar/CellChat
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
hiraksarkar/deep-learning-with-python-notebooks
Jupyter notebooks for the code samples of the book "Deep Learning with Python"
hiraksarkar/edgeR_fork
hiraksarkar/ElegantBook
Elegant LaTeX Template for Books
hiraksarkar/G_D_spatial_analysis_review
Analysis of spatial stem-ness analysis for Gene and Development review
hiraksarkar/HumanBreastCellAtlas
Repository for codes for the HBCA paper
hiraksarkar/matrixcalc
MIT IAP short course: Matrix Calculus for Machine Learning and Beyond
hiraksarkar/Modeling_Lectures
Lectures on modeling
hiraksarkar/napkin
An Infinitely Large Napkin
hiraksarkar/NMFbook_gillis
A fork from the gitlab (I want to solve using python)
hiraksarkar/plotguide
hiraksarkar/Prostate_Context_Paper
hiraksarkar/RNA_seq_tutorial
hiraksarkar/scRNAseq_Benchmark
Bench-marking classification tools for scRNA-seq data
hiraksarkar/slide-seq-pipeline
hiraksarkar/slideseq-processing
hiraksarkar/SpaGCN
SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network
hiraksarkar/spatial_lda
Probabilistic topic model for identifying cellular micro-environments.
hiraksarkar/SpatialCorr-sim
SpatialCorr-sim: Simulate spatial transcriptomics data with spatially varying correlation
hiraksarkar/SpatialDM
Spatial direct messaging detected by bivariate Moran
hiraksarkar/udlbook
Understanding Deep Learning - Simon J.D. Prince
hiraksarkar/udlbook_solution
This contains the notebooks for udlbook with attempts to solve the exercises
hiraksarkar/whitelab-computation
computation related to whitelab