ShanSabri
Computational Scientist; former member of Sana Biotechnology, ArsenalBio and @ernstlab
Stealth Mode Biotech Palo Alto, CA
Pinned Repositories
BioPerl
Perl/BioPerl Scripts from JHU AS.410.698.81.SP13
cayman-theme
A responsive theme for GitHub Pages
fmm
〰️ My attempt at fitting Finite Mixture Models from scratch
JubRi
🧩 A method for literature-based keyword ontology
Microarray-Analysis
R scripts
modified-Levenshtein
🔤 A direct and efficient translation of the dynamic programming algorithm of the Sequence-Levenshtein distance into Cython
oriFinder
🎯 Pinpoint the origin of replication (oriC) for bacterial genomes
PubMedScrapeR
📚 R Package for scraping PubMed abstracts for most frequently occurring words associated with a keyword
PySpark-Movie-Recommender
🎬 Utilizing PySpark's Alternating Least Squares (ALS) algorithm for model-based movie recommendations.
SSFold
🧬 A Dynamic Programming Algorithm for Predicting Optimal RNA Secondary Structure
ShanSabri's Repositories
ShanSabri/oriFinder
🎯 Pinpoint the origin of replication (oriC) for bacterial genomes
ShanSabri/SSFold
🧬 A Dynamic Programming Algorithm for Predicting Optimal RNA Secondary Structure
ShanSabri/BioPerl
Perl/BioPerl Scripts from JHU AS.410.698.81.SP13
ShanSabri/cayman-theme
A responsive theme for GitHub Pages
ShanSabri/fmm
〰️ My attempt at fitting Finite Mixture Models from scratch
ShanSabri/iCLIP
✂ A few scripts used to demultiplex and process iCLIP data
ShanSabri/Rainbow-analysis
Reproducible analysis of our Rainbow manuscript
ShanSabri/JubRi
🧩 A method for literature-based keyword ontology
ShanSabri/modified-Levenshtein
🔤 A direct and efficient translation of the dynamic programming algorithm of the Sequence-Levenshtein distance into Cython
ShanSabri/PubMedScrapeR
📚 R Package for scraping PubMed abstracts for most frequently occurring words associated with a keyword
ShanSabri/PySpark-Movie-Recommender
🎬 Utilizing PySpark's Alternating Least Squares (ALS) algorithm for model-based movie recommendations.
ShanSabri/academic-kickstart
Academic template adapted for Hugo static site generator.
ShanSabri/binhouse
A collection of useful little tools & code snippets without a home
ShanSabri/clipper
A tool to identify CLIP-seq peaks
ShanSabri/cronjob
⌛ A workaround to permanently store file under the global scratch file system mounted on the Hoffman2 Cluster
ShanSabri/deconR
A computational method for inferring individual cell type ChIP-seq profiles from population ChIP-seq and single cell RNA-seq data
ShanSabri/drlib
Personal R package
ShanSabri/dropseq_runner
A collection of scripts to processing single cell sequencing reads to DGE
ShanSabri/iGUIDE
Bioinformatic pipeline for identifying dsDNA breaks by marker based incorporation, such as breaks induced by designer nucleases like Cas9.
ShanSabri/PySpark-Clustering
K-means clustering algorithm in MLlib via PySpark
ShanSabri/RISmed
RISmed is an R package for downloading and analyzing data from the NCBI databases
ShanSabri/rpkg-skeleton
baseline skeleton framework for a R pkg
ShanSabri/scanpy
Single-Cell Analysis in Python. Scales to >1M cells.
ShanSabri/ShanSabri
ShanSabri/shansabri.github.io
My online treefort
ShanSabri/slncky
slncky is a tool that filters a set of transcripts for bona-fide long non-coding RNAs and discovers long non-coding RNA orthologs.
ShanSabri/sra-tools
SRA Tools
ShanSabri/tempus
Tempus Challenge
ShanSabri/WhatsAppVisualizeR
💬 R Package for importing and analyzing WhatsApp chat data
ShanSabri/yoguRt
This useless package contains one function, yogurt(), with one purpose: To return an interesting yogurt fact. Why? Well, why not?