Diane Trout's repositories
debian-guix
Debian packaging recipe for Guix package manager
apparmor-det
Apparmor security profiles
woldlab-rna-seq
Porting the ENCODE-DCC long-rna-seq-pipeline from dnanexus to our cluster
mex_gene_archive
Utilities to handle an archive of matrix market exchange count files as frequently generated by single cell gene mappers
all-positive-integers-in-ascending-order
A list of all positive integers in ascending order (incomplete)
C1_mouse_limb_combined
Analysis and data preparation code for analyzing single cell mouse forelimb paper data.
conda-recipes
packaging some software needed for my snakemake workflows that use conda based wrappers
dask
Parallel computing with task scheduling
debian-spp
Debian packaging for spp
encode3-curation
Various work in progress files working on trying to curate our ENCODE data submissions.
encode4-curation
notes for submiting things for ENCODE4 project
encode4-rna-wg-paper
Python notebooks supporting ENCODE4 RNA working group paper
encoded_client
Search and submit to the ENCODE-DCC portal.
guix-detrout
Staging repository for me to package things I find useful using Guix.
hello-actions
Repository to investigate github actions
htsworkflow
Wold lab LIMS
igvf-seq-spec-demo
Example notebook for creating and attaching seq-spec files to IGVF fastq files.
igvf_mice
Database for tracking biosamples and processed result files for our joint UCI/Caltech IGVF project
LR-splitpipe
Demultiplexing and debarcoding tool designed for LR-Split-seq data.
nextcloud-news
:newspaper: RSS/Atom feed reader
scaqmd_sensor
home-assistant sensor to watch South Coast AQMD's AQI and Forecast
seqspec
machine-readable file format for genomic library sequence and structure
single-cell-qc
Wold lab single cell QC software.
TALON
Technology agnostic long read analysis pipeline for transcriptomes
woldrnaseq-wrappers
Snakemake wrappers used by woldlab-rna-seq project