Matt Karikomi's repositories
cuda_devcon
a cuda-enabled dev container
SeuratRDS.jl
handle loading and unloading of serialized seurat objects in julia
SignalTemps.jl
Exponential representation of cell-cell interactions
AdditiveCellCom.jl
Generalized linear models for cell-cell communication
PathwayCommons-VOS
PathwayCommons v12 on Virtuoso 7
bioinfo_mwes
MWEs for bioinformatics data formats, suitable for creating posts on forums like https://discuss.pytorch.org
bpnet-lite
This repository hosts a minimal version of a Python API for BPNet.
cisTopic
cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
cuda_devcon2
updated dev container repo supporting python, cuda, and R
ddsm
Dirichlet Diffusion Score Model for Biological Sequence Generation.
DNA-Diffusion
🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨
dragonnfruit
A method for analyzing scATAC-seq experiments.
pcquery_poster
poster for SocalSysBio
podcast_tools
tools to identify and split podcasts for mp3 players
pybedtools
Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
pychromVAR
A python package for chromVAR
pycisTopic
pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
pyGenomeViz
A genome visualization python package for comparative genomics
pyjaspar
A Pythonic interface to query and access JASPAR transcription factor motifs
qmk_firmware
Open-source keyboard firmware for Atmel AVR and Arm USB families
SCAFE
Single Cell Analysis of Five'Ends
scvi-tools
Deep probabilistic analysis of single-cell omics data
sftpgo
Fully featured and highly configurable SFTP server with optional HTTP/S, FTP/S and WebDAV support - S3, Google Cloud Storage, Azure Blob
SignalPlots.jl
plots of signaling pathways
slideseq-tools
Tools for analyzing Slide-seq data
tfmodisco-lite
A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.