iandriver
Python and R Single Cell sequencing tools for analysis and visualization. Open Science advocate.
Gordian BiotechnologySan Francisco
Pinned Repositories
affy_reader
Python scripts for parsing affymetrix array cel and cdf files
Bioinformatics
Random Bioinformatics
gene_graphlasso
Creates network graphs from single cell expression data.
ips17-BU3-single-cell
The full data and code for the paper: Prospective isolation and single cell profiling of NKX2-1+/CD47+ human lung progenitors derived from pluripotent stem cells. Hawkins et al. JCI
python_class
files for UCSF Cell Hackers Class
RNA-sequence-tools
Tools for RNA seq and gene annotation
scicast
Single Cell Iterative Clustering and Significance Testing
sra_fetch
GUI app for downloading whole SRA series or individual and metadata. Additional options for uploading to S3
iandriver's Repositories
iandriver/scicast
Single Cell Iterative Clustering and Significance Testing
iandriver/RNA-sequence-tools
Tools for RNA seq and gene annotation
iandriver/ips17-BU3-single-cell
The full data and code for the paper: Prospective isolation and single cell profiling of NKX2-1+/CD47+ human lung progenitors derived from pluripotent stem cells. Hawkins et al. JCI
iandriver/affy_reader
Python scripts for parsing affymetrix array cel and cdf files
iandriver/Bioinformatics
Random Bioinformatics
iandriver/python_class
files for UCSF Cell Hackers Class
iandriver/gene_graphlasso
Creates network graphs from single cell expression data.
iandriver/sra_fetch
GUI app for downloading whole SRA series or individual and metadata. Additional options for uploading to S3
iandriver/clone-gut-model
model of drosophila intestine
iandriver/empty_nn
Learning empty droplets in scRNAseq
iandriver/Falco
A quick and flexible single-cell RNA-seq processing framework on the cloud
iandriver/GEOparse
Python library to access Gene Expression Omnibus Database (GEO)
iandriver/HASSL_Homogeneous_Analysis_of_SRA_rnaSequencing_Libraries
iandriver/iSEE
R/shiny interface for interactive visualization of data in objects derived from the SummarizedExperiment class
iandriver/magic
iandriver/monocle-release
iandriver/pyensembl
Python interface to ensembl reference genome metadata (exons, transcripts, etc...)
iandriver/python_practice
iandriver/Random
iandriver/RCA
R package for robust clustering of single cell RNA sequencing data
iandriver/Rnaseq
Rnaseq pipeline deliverable
iandriver/scanpy
Single-Cell Analysis in Python. Scales to >1M cells.
iandriver/seaborn
Statistical data visualization using matplotlib
iandriver/signac
R toolkit for the analysis of single-cell chromatin data
iandriver/wishbone
Wishbone is an algorithm to align cells along developmental trajectories with branches
iandriver/ZIFA
Zero-inflated dimensionality reduction algorithm for single-cell data