RajLabMSSM

The Raj Lab investigates neurodegenerative disorders through the application of computational methods to multi-omics data

Icahn School of Medicine at Mount Sinai, Department of Neuroscience, New York City, New York

Pinned Repositories

AMP_AD_StructuralVariation
Repository for the AMP-AD structural variation manuscript
Language:HTML7 2 35
catalogueR
Easy-to-use R wrappers for the eQTL Catalogue's API (both with tabix and the REST API).
Language:R13 5 141
echolocatoR
Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.
Language:R34 3 9711
Fine_Mapping
Fine mapping of genes associated with Parkinson's Disease using a variety of methods
Language:HTML10 4 04
Fine_Mapping_Shiny
Shiny app for plotting and sharing fine-mapping results from echolocatoR
Language:R4 3 42
ggLocusZoom
Create LocusZoom-style plots in R.
Language:R20 3 04
MiGA_public_release
Language:HTML5 3 20
MyND-Analysis
MyND Project
Language:HTML4 2 00
PD_omics_review
Data and code associated with the Parkinson's Disease review paper by Schilder, Navarro & Raj (2021).
Language:HTML5 2 00
snakeSV
Snakemake pipeline for SV discovery and analysis
Language:Python6 2 51

RajLabMSSM's Repositories

RajLabMSSM/echolocatoR
Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.
Language:R34 3 9711
RajLabMSSM/ggLocusZoom
Create LocusZoom-style plots in R.
Language:R20 3 04
RajLabMSSM/catalogueR
Easy-to-use R wrappers for the eQTL Catalogue's API (both with tabix and the REST API).
Language:R13 5 141
RajLabMSSM/snakeSV
Snakemake pipeline for SV discovery and analysis
Language:Python6 2 51
RajLabMSSM/MiGA_public_release
Language:HTML5 3 20
RajLabMSSM/isoseq-pipeline
pipeline for working with PacBio long read RNA data using the outputs of isoseq3
Language:Python4 3 24
RajLabMSSM/downstream-QTL
set of scripts and pipelines to work with QTL results
Language:HTML3 4 61
RajLabMSSM/echoplot
echoverse module: Locus plot creation for fine-mapping and colocalization studies.
Language:R3 2 131
RajLabMSSM/QTL-mapping-pipeline
A snakemake pipeline for QTL mapping. Based on the GTEX pipeline
Language:Python3 3 150
RajLabMSSM/echoannot
echoverse module: Annotate fine-mapping results
Language:R2 2 14
RajLabMSSM/leafcutter-pipeline
Differential splicing and visualisation pipeline for the Raj lab
Language:Python2 3 74
RajLabMSSM/mmQTL-pipeline
Language:Python2 1 00
RajLabMSSM/Monocytes_RNA_Editing_Analysis
Language:HTML2 2 0
RajLabMSSM/RNA-pipelines
A repo to contain various RNA-seq processing pipelines, to cut down how many different repos I have.
Language:Python2 3 43
RajLabMSSM/devoptera
⏩ Practical tools for R developers :rewind: :wrench::bat: :hammer::bat: :toolbox::bat:
Language:R1 2 1
RajLabMSSM/echoconda
echoverse module: conda environment handling
Language:R1 2 62
RajLabMSSM/echoLD
echoverse module: LD downloading and processing
Language:R1 2 111
RajLabMSSM/Genotype_QC_Pipeline_2.0
Language:Python1 1 1
RajLabMSSM/ldsc
LD Score Regression Pipeline
Language:Python1 2 01
RajLabMSSM/New_beginnings_2.0
1 2 01
RajLabMSSM/AR_Rotation
Language:HTML2 0
RajLabMSSM/downloadR
echoverse module: Single- and multi-threaded downloading functions.
Language:R2 2
RajLabMSSM/echodata
echoverse module: Example data.
Language:R2 13
RajLabMSSM/echodeps
echoverse module: Create package dependency graphs
Language:R2 3
RajLabMSSM/echogithub
echoverse module: Extract data and metadata from GitHub
Language:R2 3
RajLabMSSM/echotabix
echoverse module: Tabix indexing and querying.
Language:R2 5
RajLabMSSM/echoverseTemplate
Self-updating template for creating echoverse R packages.
Language:R2 0
RajLabMSSM/isoMiGA
The isoform-centric microglia genomic atlas.
3 01
RajLabMSSM/MBV_Pipeline
Language:Python2 1
RajLabMSSM/RajLab_website
Official website for the Raj Lab detailing personnel, updates, current projects and opportunities.
Language:CSS2 1