sudolin Goto Github PK

pnet_prostate_paper

P-NET, Biologically informed deep neural network for prostate cancer classification and discovery

prostate_context_paper

qcri-sidra-icr

Immune response signatures in cancer

r-practice

r-seurat-scripts

Scripts to install as a Bioconda package for making workflows

reductionwrappers

R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)

rna-seq-pipeline

rss

Scripts for establishing replication stress signature

samsa2

SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customizable reference databases.

scanpy_lightgbm_10x

Use the Scanpy read 10X dataset and LightGBM run the model

scarhrd

sccancer

A package for automated processing of single cell RNA-seq data in cancer

sccoda

A Bayesian model for compositional single-cell data analysis

scdc

scflow

Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.

scib

Benchmarking analysis of data integration tools

scipath

Improving Single-Cell RNA-seq Clustering by Integrating Pathways

scp

An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.

scpnmf

scprognosis

Single cell transcriptomes improve cancer prognosis

scran

Clone of the Bioconductor repository for the scran package.

scrnaseq_pipelines

Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas

scrubletr

scsnippet

My own code repository for single-cell analysis

sc_proportions

Dirichlet regression to test the abundance of cell populations between conditions

seer_opcs_survival_prediction_code_data

single-cell-multi-omics-profiling-of-human-gliomas

Code for Chaligne, Gaiti, Silverbush, Schiffman et al. paper “Epigenetic encoding, heritability and plasticity of glioma transcriptional cell states”

single-cell-sequencing-of-subpallium

Data and code for the paper "Single-cell transcriptomics of the origin and molecular diversity of interneurons in the human fetal brain"

singlecellmethods

Collection of useful methods for single cell analysis

singlecellomics