Pinned Repositories
iterativeWGCNA
Extension of the WGCNA program to improve the eigengene similarity of modules and increase the overall number of genes in modules.
collagenerator
Use circular permutation approach to solve and visualize chiral assemblies of collagen trimers (DRAFT)
css-cycle
A bicycle designed entirely in CSS.
eureka
Collection of useful bits used to elucidate pesky little mysteries
pancreatlas
A web application front-end for browsing and investigating collection-based bioimages
BetaCell-GCN
A developmental lineage-based gene co-expression network for mouse pancreatic beta-cells
jpcartailler's Repositories
jpcartailler/pancreatlas
A web application front-end for browsing and investigating collection-based bioimages
jpcartailler/eureka
Collection of useful bits used to elucidate pesky little mysteries
jpcartailler/3D-Plotting-in-Seurat-3.0.0
This repository contains R code, with which you can create 3D tSNE plots of Seurat analyzed scRNAseq data
jpcartailler/awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
jpcartailler/core-informatics-utilities
Utility scripts and odd bits to facilitate with tasks related to Core Informatics LIMS system
jpcartailler/cutandrun
Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
jpcartailler/detectIS
A pipeline to rapidly detect exogenous DNA integration sites using DNA or RNA paired-end sequencing data
jpcartailler/FIREVAT
FInding REliable Variants without ArTifacts
jpcartailler/grenepipe
A flexible, scalable, and reproducible pipeline to automate variant calling from sequence reads.
jpcartailler/Guide-to-manipulating-PLINK-EIG-and-VCF-files
A guide to manipulating genotypic data across the common formats: VCF, EIGENSTRAT and PLINK (PACKEDPED) files. Includes how to convert between formats, merge datasets or subset by individuals in each of the formats.
jpcartailler/gwas-qc
The IKMB GWAS Quality Control Pipeline
jpcartailler/Gyrase_Topo-Seq
Exploring gyrase cleavage sites across E. coli W3110 genome
jpcartailler/h3agwas
GWAS Pipeline for H3Africa
jpcartailler/Human-Pancreas-single-cell-RNA-expression-Atlas
jpcartailler/idr
IDR
jpcartailler/kana
Single cell RNA-seq analysis in the browser
jpcartailler/lt
jpcartailler/MPAL-Single-Cell-2019
Publication Page for MPAL Paper 2019
jpcartailler/Multiome-QC-NextFlow
jpcartailler/nf-gwas
A nextflow pipeline to perform state-of-the-art genome-wide association studies.
jpcartailler/nf-rnaSeqCount
Assembly and differential expression analysis
jpcartailler/omero-user-scripts
Plugins for OMERO
jpcartailler/Operator-Mono
Coding Font Operator Mono
jpcartailler/PheWAS
Performs a PheWAS analysis & generates a Manhattan plot using the PheWAS R package
jpcartailler/rooftop-detection-python
Detect Rooftops from low resolution satellite images and calculate area for cultivation and solar panel installment
jpcartailler/rscodeio
An RStudio theme inspired by Visual Studio Code.
jpcartailler/ShortCake
A docker image for single-cell analysis
jpcartailler/snpFC
Filter and compare SNPs from multiple VCF files
jpcartailler/STARsolo
scripts for synchronized processing of scRNA-seq and bulk RNA-seq
jpcartailler/workflows
Bioinformatics workflows developed for and used on the St. Jude Cloud project.