Pinned Repositories
15Gene-ccRCC
R code to generate 15Gene JCO PO paper figures
2018-August-Variant-Analysis-Workshop
From SNP and structural variant calling to GWAS.
2018_scWorkshop
2019-Alliance-for-Global-Health-and-Science-Makerere-University_Variants
2019 Alliance for Global Health and Science, Makerere University, Variant Analysis
2019-single-cell-RNA-sequencing-Workshop-UCD_UCSF
2019 single cell RNA sequencing Workshop @ UCD AND UCSF
2019-snakemake-Harvard-Informatics-nanocourse
Intro to workflows for efficient automated data analysis, using snakemake.
scRNA-seq_notes
A list of scRNA-seq analysis tools
scRNA-seq_online
scRNAseq-analysis-notes
scRNAseq analysis notes from Ming Tang
SLiPiR-seq
AmrR101's Repositories
AmrR101/SLiPiR-seq
AmrR101/15Gene-ccRCC
R code to generate 15Gene JCO PO paper figures
AmrR101/2021-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!
AmrR101/cDNA_Cupcake
Miscellaneous collection of Python and R scripts for processing Iso-Seq data
AmrR101/Cogent
Coding Genome Reconstruction using Iso-Seq data
AmrR101/DGE_workshop
AmrR101/drop
Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
AmrR101/embflow
AmrR101/genomics
A collection of scripts and notes related to genomics and bioinformatics
AmrR101/ichorCNA
Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
AmrR101/IsoSeq
IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
AmrR101/jbrowse-components
Monorepo with JBrowse 2 web, JBrowse 2 desktop, and more.
AmrR101/Larson_cfRNA_DarkChannelBiomarkers
AmrR101/m6A-SAC-seq
Perl, Bash shell, and R scripts for m6A-SAC-seq data analysis.
AmrR101/MagPhase
Phasing for metagenomics using PacBio long reads
AmrR101/mas-seq-paper-data
Data and additional information from the initial MAS-ISO-seq study, "High-throughput RNA isoform sequencing using programmable cDNA concatenation"
AmrR101/maser
Mapping Alternative Splicing Events to pRoteins
AmrR101/MeRIPtools
AmrR101/MUDAN
Multi-sample Unified Discriminant ANalysis
AmrR101/pseudoU-BIDseq
🧪 New pipeline for detecting pseudouridine modification on RNA (BID-seq, etc)
AmrR101/r-pointillism
R package for for single-cell RNA-seq clustering analysis.
AmrR101/scisorseqr
scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two conditions
AmrR101/scRepertoire
A toolkit for single-cell immune profiling
AmrR101/seekr
A library for counting small kmer frequencies in nucleotide sequences.
AmrR101/SingleCell
AmrR101/singleCellHaystack
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
AmrR101/SQANTI3
Tool for the Quality Control of Long-Read Defined Transcriptomes
AmrR101/srslyrun
Not your grandma's NGS analysis - software for analyzing FASTQs from SRSLY libraries
AmrR101/wf-single-cell
AmrR101/YouTubeTutorials