Pinned Repositories
analysePeaks
A package to compare your peaks for ChIP/CUT&RUN/ATAC... between them
baredSC
Bayesian Approach to Retreive Expression Distribution of Single Cell
galaxyduboule-infrastructure
Everything needed to maintain galaxyduboule or reinstall it from scratch.
galaxydubouleBioblendScripts
Python scripts using bioblend to interact with galaxy more automatically
omeroDubouleUploadAnnotate
Shiny app to upload and annotate data on OMERO
rnaseq_rscripts
Rscripts with config files to analyse/plot RNAseq data
scriptsForAmandioEtAl2021
All the scripts needed to reproduce the NGS figures in Amandio et al. 2021 from raw data.
tools-lldelisle
Tool Shed repositories maintained by Lucille Lopez-Delisle
usefulLDfunctions
a R package with the functions I use regularly
usefulLDfunctionsGR
Functions That I Use Regularly Which depends on GenomicRanges
lldelisle's Repositories
lldelisle/scriptsForAmandioEtAl2021
All the scripts needed to reproduce the NGS figures in Amandio et al. 2021 from raw data.
lldelisle/Hi-C_reanalysis_Bonev_2017
lldelisle/myNGSanalysis
How I analyse different NGS commandline or galaxy
lldelisle/analysePeaks
A package to compare your peaks for ChIP/CUT&RUN/ATAC... between them
lldelisle/scriptsForFernandezGuerreroEtAl2021
all the R scripts needed to reproduce the figures in Fernandez-Gerrero et al. 2021.
lldelisle/omeroDubouleUploadAnnotate
Shiny app to upload and annotate data on OMERO
lldelisle/usefulLDfunctions
a R package with the functions I use regularly
lldelisle/biopython
Official git repository for Biopython (originally converted from CVS)
lldelisle/bx-python
Tools for manipulating biological data, particularly multiple sequence alignments
lldelisle/HiCExplorer
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
lldelisle/idc
Intergalactic (reference) Data Commission
lldelisle/ijp-max-inscribed-circles
ImageJ/Fiji plugin that fills a mask or selection with the largest inscribed cirlces
lldelisle/ilastik-conda-recipes
Conda recipes for building ilastik dependencies.
lldelisle/infrastructure-playbook
Ansible playbook for managing UseGalaxy.eu infrastructure. For the playbook managing Galaxy itself, see https://github.com/galaxyproject/usegalaxy-playbook/
lldelisle/multi-package-containers
Testing building mulled containers for multi-requirement tools.
lldelisle/omero-py
Python project containing Ice remoting code for OMERO
lldelisle/pairix
1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates
lldelisle/peaks2utr
A robust Python tool for the annotation of 3’ UTRs
lldelisle/planemo-ci-action
Test, deploy, or lint changed Galaxy tools or workflows using Planemo.
lldelisle/pyfaidx
Efficient pythonic random access to fasta subsequences
lldelisle/pylibtiff-feedstock
A conda-smithy repository for pylibtiff.
lldelisle/scriptsForBeccariEtAl2021
all the scripts needed to reproduce the figures in Beccari et al. 2021 from raw data.
lldelisle/scriptsForBoltEtAl2021
All the scripts needed to reproduce the NGS figures in Bolt et al. 2021 from raw data.
lldelisle/scriptsForBoltEtAl2022
All scripts necessary to build figures from raw data in Bolt et al. 2022.
lldelisle/scriptsForFernandezGuerreroEtAl2020
all the scripts needed to reproduce the figures in Fernandez-Guerrero et al. 2020 from raw data.
lldelisle/scriptsForRekaikEtAl2022
All scripts necessary to build figures from raw data in Rekaik et al. 2022.
lldelisle/scriptsForRodriguezCarballoEtAl2020
scripts used in Rodriguez-Carballo et al. 2020
lldelisle/scriptsForWilleminEtAl2021
All the scripts needed to reproduce the NGS figures in Willemin et al. 2021 from raw data.
lldelisle/seurat
R toolkit for single cell genomics
lldelisle/umi4cpackage