Sidy2015's repositories
scAmpi_single_cell_RNA
Code related to scRNA analysis using the scAmpi workflow
EBAII
Supports de cours de l'Ecole de Bioinformatique Aviesan - IFB - Inserm "Initiation au traitement des données de génomique obtenues par séquençage à haut débit"
myrepo
Repository to test git/github setting
awesome-expression-browser
😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎
ChrAccR
Analyzing chromatin accessibility data in R
rna-seq-lesson
A Carpentries-style lesson on RNA-Sequencing
10X_snakepipe
A snakemake pipeline for 10X genomics cellranger
WSBIM2122
Omics data analysis
2020-Epigenetics_Workshop
ATAC-Seq, ChIP-Seq, and whole genome bisulfite! An introduction to analyzing some of the most popular types of epigenetic data.
singleCellTK
Interactively analyze single cell genomic data
tenx
Pipelines for the analysis of 10x single-cell RNA-sequencing data
scSTEM
Single cell STEM (scSTEM) is a shiny app based R package for visualizing and clustering genes in pseudotime ordered single cell RNA-seq data. scSTEM is a GUI based tool and thus does not require any coding experience.
harmony
Fast, sensitive and accurate integration of single-cell data with Harmony
scATAC-seq_notes
scATAC-seq data analysis tools and papers
Muto_Wilson_NComm_2020
Workflow for analysis of healthy human kidney by snRNAseq and snATACseq
workshop-reproducible-research
NBIS/ELIXIR course: Tools for Reproducible Research
ATACseq
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
host_gene_microbiome_interactions
Analysis framework for integrating gut microbiome and host gene expression data
workshop-scRNAseq
Single cell RNA sequencing analysis course
Seurat-to-RNA-Velocity
A guide to using a Seurat object in conjunction with RNA Velocity
targets_bioinfo_example
Example bioinformatics workflow with targets, conda, and docker
rna_velocity_quant
Evaluation of the effect of quantification choices on RNA velocity estimates
single-cell_sib_scilifelab_2021
SciLifeLab SIB Summer School for Advanced topics in Single Cell Omics. Site: https://nbisweden.github.io/single-cell_sib_scilifelab_2021/
arpir
Automatic RNA-Seq Pipelines with Interactive Report