AmrR101's repositories
15Gene-ccRCC
R code to generate 15Gene JCO PO paper figures
2021-August-Iso-Seq
Three day workshop offered in partnership with PacBio. Learn all about the possibilities of full length isoform sequencing from PacBio experts and experienced Core personnel!
cDNA_Cupcake
Miscellaneous collection of Python and R scripts for processing Iso-Seq data
Cogent
Coding Genome Reconstruction using Iso-Seq data
drop
Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
genomics
A collection of scripts and notes related to genomics and bioinformatics
ichorCNA
Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
IsoSeq
IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
jbrowse-components
Monorepo with JBrowse 2 web, JBrowse 2 desktop, and more.
m6A-SAC-seq
Perl, Bash shell, and R scripts for m6A-SAC-seq data analysis.
m6Amonster
tool sets to analyze high throughput data for RNA modifications
MagPhase
Phasing for metagenomics using PacBio long reads
mas-seq-paper-data
Data and additional information from the initial MAS-ISO-seq study, "High-throughput RNA isoform sequencing using programmable cDNA concatenation"
maser
Mapping Alternative Splicing Events to pRoteins
MUDAN
Multi-sample Unified Discriminant ANalysis
OrchestratingSingleCellAnalysis
Content for the OSCA Book.
pseudoU-BIDseq
🧪 New pipeline for detecting pseudouridine modification on RNA (BID-seq, etc)
python-novice-gapminder
Plotting and Programming in Python
r-pointillism
R package for for single-cell RNA-seq clustering analysis.
scisorseqr
scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two conditions
scRepertoire
A toolkit for single-cell immune profiling
singleCellHaystack
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
SQANTI3
Tool for the Quality Control of Long-Read Defined Transcriptomes