Pinned Repositories
compgen2021
flexynesis
A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
genomation
R package for genomic feature analysis and visualization
ikarus
Identifying tumor cells at the single-cell level using machine learning
janggu
Deep learning infrastructure for genomics
maui
Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
netSmooth
netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation
pigx
Pipelines in genomics
swineherd
Let the Shepherd herd Guix System containers
VoltRon
Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration
BIMSB bioinformatics platform / Akalin Lab's Repositories
BIMSBbioinfo/ikarus
Identifying tumor cells at the single-cell level using machine learning
BIMSBbioinfo/VoltRon
Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration
BIMSBbioinfo/netSmooth
netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation
BIMSBbioinfo/flexynesis
A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
BIMSBbioinfo/pigx_rnaseq
Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipeline
BIMSBbioinfo/CompassDock
Official Implementation of CompassDock
BIMSBbioinfo/mergen
AI-Driven Code Generation, Explanation and Execution for Data Analysis
BIMSBbioinfo/pigx_bsseq
bisulfite sequencing pipeline from fastq to methylation reports
BIMSBbioinfo/pigx_chipseq
Pipeline for Analysis of ChIP-Seq data
BIMSBbioinfo/pigx_scrnaseq
Pipeline for analysis of Dropseq single cell data
BIMSBbioinfo/scregseg
Single-cell regulatory landscape segmentation
BIMSBbioinfo/mergenstudio
BIMSBbioinfo/bimsbbioinfo.github.io
website for the platform
BIMSBbioinfo/pigx_docs
Documentation for PiGx
BIMSBbioinfo/ZarrArray
Zarr backend for DelayedArray objects
BIMSBbioinfo/flexynesis-benchmarks
Comprehensive continuous benchmarking of tools for multi-omics data integration
BIMSBbioinfo/flexynesis_manuscript
All publication material relevant for the manuscript describing the flexynesis software package
BIMSBbioinfo/oncotrialLLM
BIMSBbioinfo/rcas-web
Web interface for RCAS
BIMSBbioinfo/scmaui-experiments
Tutorials for scMaui
BIMSBbioinfo/spatialNetSmooth
BIMSBbioinfo/spatialNetSmooth_scripts
BIMSBbioinfo/anglemania
Repository for the "Neuroblastoma" project, colloquailly known as anglemana; source material for a package under the same name
BIMSBbioinfo/compgen
BIMSBbioinfo/HDF5DataFrame
BIMSBbioinfo/ImageArray
BIMSBbioinfo/medLLMbenchmark
BIMSBbioinfo/pigx-common
Common infrastructure used by all PiGx pipelines
BIMSBbioinfo/tibanna-bimsb
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.
BIMSBbioinfo/ZarrDataFrame