Pinned Repositories
10xR2C2
Scripts for analyzing 10x R2C2 data
Accessing_public_genomic_data
Tutorials on accessing public reference and genomic data
atac-seq-pipeline
ENCODE ATAC-seq pipeline
ATACProc
ATAC-seq processing pipeline
ATACseq
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
AtacWorks
Deep learning based processing of Atac-seq data
bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
bioinf525
ATAC-seq lab for BIOINF525
book
Compiled and pretty version of labs
C3POa
Computational pipeline for calling consensi on R2C2 nanopore data
Chancen-King's Repositories
Chancen-King/bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
Chancen-King/C3POa
Computational pipeline for calling consensi on R2C2 nanopore data
Chancen-King/RCAv2
R package for robust clustering of single cell RNA sequencing data
Chancen-King/Mandalorion
Pipeline to identify isoforms from full-length cDNA sequencing data
Chancen-King/signac
R toolkit for the analysis of single-cell chromatin data
Chancen-King/infercnv
Inferring CNV from Single-Cell RNA-Seq
Chancen-King/reprocess_public_10x
Scripts to help get fastqs
Chancen-King/STARsolo
wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
Chancen-King/ElongationRate
Code used in the paper "Aging-associated changes in transcriptional elongation influence metazoan longevity".
Chancen-King/CSAMA
Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology
Chancen-King/draw
Chancen-King/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
Chancen-King/cellatac
Sanger Cellular Genetics single-cell ATAC-seq pipeline.
Chancen-King/MOFA2
Multi-Omics Factor Analysis
Chancen-King/liana
LIANA: a LIgand-receptor ANalysis frAmework
Chancen-King/CONICS
CONICS: COpy-Number analysis In single-Cell RNA-Sequencing
Chancen-King/AtacWorks
Deep learning based processing of Atac-seq data
Chancen-King/atac-seq-pipeline
ENCODE ATAC-seq pipeline
Chancen-King/CCLE_heterogeneity
Chancen-King/scanorama
Panoramic stitching of single cell data
Chancen-King/Python-programming-exercises
100+ Python challenging programming exercises
Chancen-King/clust
Automatic and optimised consensus clustering of one or more heterogeneous datasets
Chancen-King/snakemake-workshop
Chancen-King/integrative-transcriptomics
Integrative transcriptomics reveals sexually dimorphic control of the cholinergic/neurokine interface in schizophrenia and bipolar disorder
Chancen-King/scCRC_continuum
Chancen-King/Accessing_public_genomic_data
Tutorials on accessing public reference and genomic data
Chancen-King/ATACseq
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
Chancen-King/FCA_bone_marrow
This repository contains all analysis scripts used to explore single cell datasets for: Jardine and Webb et al., 2021, "Blood and immune development in human fetal bone marrow and in Down syndrome" (Nature, 2021).
Chancen-King/scRNA.seq.course
Analysis of single cell RNA-seq data course
Chancen-King/ATACProc
ATAC-seq processing pipeline