sameet
I am a bioinformatics scientist. I currently work as Bioinformatics Scientist at Yale Center for Genome Analysis. I write end-to-end pipelines.
New Haven, CT
Pinned Repositories
ChIA-PET2
a versatile and flexible pipeline for analysing different variants of ChIA-PET data
clipseqananalysis
cruzdb
python access to UCSC genomes database
DAseq
HiC-Pro
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
HiCPlotter
“When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau
quartoReport
Quarto Report for RNA-Seq differential gene expression analysis using DESeq2
scAnalysis
Repository to hold functions and code for single cell data analysis.
seurat
R toolkit for single cell genomics
sameet's Repositories
sameet/HiC-Pro
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
sameet/HiCPlotter
“When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau
sameet/seurat
R toolkit for single cell genomics
sameet/ChIA-PET2
a versatile and flexible pipeline for analysing different variants of ChIA-PET data
sameet/clipseqananalysis
sameet/cruzdb
python access to UCSC genomes database
sameet/DAseq
sameet/DoGFinder
sameet/EnrichedHeatmap
make enriched heatmap which visualizes the enrichment of genomic signals to specific target regions.
sameet/generic_scripts
Generic scripts in different languages that will do only one thing properly.
sameet/quartoReport
Quarto Report for RNA-Seq differential gene expression analysis using DESeq2
sameet/scAnalysis
Repository to hold functions and code for single cell data analysis.
sameet/human_NETseq
sameet/kentUtils
UCSC command line bioinformatic utilities
sameet/R.4Cker
sameet/scExtras
sameet/seqtk
Toolkit for processing sequences in FASTA/Q formats
sameet/SingleCellWorkshop
sameet/SnakemakeRNASeqExample
An example RNAseq pipeline with snakemake on the NIH biowulf cluster
sameet/velocyto.R
RNA velocity estimation in R
sameet/VisCap
VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number variants (CNVs) from targeted next-generation sequencing data.
sameet/WESExplorer
Graphical explorer of the WES VCF files.