Pinned Repositories
alevinQC
Create QC and summary reports for Alevin output
ARMOR
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
conquer_comparison
Code for evaluation of differential expression methods in single-cell RNA-seq data
countsimQC
countsimQC - Compare characteristic features of count data sets
ExploreModelMatrix
Explore design matrices interactively with R/Shiny
rna_velocity_quant
Evaluation of the effect of quantification choices on RNA velocity estimates
treeclimbR
einprot
Proteomics analysis workflows
mutscan
Software to process, statistically analyse and visualise deep mutational scanning data
iSEE
R/shiny interface for interactive visualization of data in SummarizedExperiment objects
csoneson's Repositories
csoneson/ARMOR
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
csoneson/ExploreModelMatrix
Explore design matrices interactively with R/Shiny
csoneson/alevinQC
Create QC and summary reports for Alevin output
csoneson/countsimQC
countsimQC - Compare characteristic features of count data sets
csoneson/treeclimbR
csoneson/iCOBRA
Interactive benchmarking of ranking and assignment methods
csoneson/compcodeR
csoneson/dreval
Convenience functions to evaluate reduced dimension representations in SingleCellExperiment objects
csoneson/jcc
R package to calculate junction coverage compatibility (JCC) scores
csoneson/DuoClustering2018
R package with data sets and clustering results from Duò et al (F1000Research 2018)
csoneson/ConfoundingExplorer
csoneson/TabulaMurisData
Access data from Tabula Muris Consortium via R/Bioconductor
csoneson/BiocBuildFailureDiagnosis
csoneson/joss-jlsc-2024
csoneson/armor_test_environment
csoneson/bioc_pkg_licenses
csoneson/CSAMA_website
Website for CSAMA
csoneson/csoneson
csoneson/csoneson.github.io
csoneson/dms-viz.github.io
Interactive tool for visualizing site-level data on a protein structure
csoneson/exampleRPackage
csoneson/fraggler
csoneson/ipa-project-template
Copier template for image processing & analysis projects.
csoneson/isee-lab-csama2024
csoneson/mashpit
:pencil: Sketch-based surveillance platform
csoneson/orthos_package_list
csoneson/peakCombiner
The fully R based tool peakCombiner is a user-friendly, transparent, modular and customizable package with the purpose to create a consensus peak file from genomic input regions. The aim is to allow even novice R users to create good quality combined peak sets to be used as the starting point for most downstream differential analyses.
csoneson/sketchR_package_list
csoneson/SummarizedExperiment
SummarizedExperiment container
csoneson/test_biocmanager