sunbeamA robust, extensible metagenomics pipeline
Stars: ✭ 143 (+217.78%)
PorcupineExpress parametrable, composable and portable data pipelines
Stars: ✭ 70 (+55.56%)
galaksioAn easy-to-use way for running Galaxy workflows.
Stars: ✭ 19 (-57.78%)
Pytorch VaeA Collection of Variational Autoencoders (VAE) in PyTorch.
Stars: ✭ 2,704 (+5908.89%)
CodebraidLive code in Pandoc Markdown
Stars: ✭ 204 (+353.33%)
tailseekerSoftware for measuring poly(A) tail length and 3′-end modifications using a high-throughput sequencer
Stars: ✭ 17 (-62.22%)
SteppyLightweight, Python library for fast and reproducible experimentation 🔬
Stars: ✭ 119 (+164.44%)
snakefiles🐍 Snakefiles for common RNA-seq data analysis workflows.
Stars: ✭ 78 (+73.33%)
EverwareEverware is about re-useable science, it allows people to jump right in to your research code.
Stars: ✭ 112 (+148.89%)
EnmfThis is our implementation of ENMF: Efficient Neural Matrix Factorization (TOIS. 38, 2020). This also provides a fair evaluation of existing state-of-the-art recommendation models.
Stars: ✭ 96 (+113.33%)
FglabFuture Gadget Laboratory
Stars: ✭ 218 (+384.44%)
snakefmtThe uncompromising Snakemake code formatter
Stars: ✭ 78 (+73.33%)
AvalancheAvalanche: a End-to-End Library for Continual Learning.
Stars: ✭ 151 (+235.56%)
Rmarkdown tutorialReproducible Research with Rmarkdown: data management, analysis, and reporting all-in-one
Stars: ✭ 18 (-60%)
SarekDetect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
Stars: ✭ 124 (+175.56%)
dentistClose assembly gaps using long-reads at high accuracy.
Stars: ✭ 39 (-13.33%)
OsfrR interface to the Open Science Framework (OSF)
Stars: ✭ 117 (+160%)
FmaFMA: A Dataset For Music Analysis
Stars: ✭ 1,391 (+2991.11%)
snakemake-mode[MIRROR] Emacs support for Snakemake
Stars: ✭ 30 (-33.33%)
workflUXAn open-source, cloud-ready web application for simplified deployment of big data workflows.
Stars: ✭ 26 (-42.22%)
Grand Challenge.orgA platform for end-to-end development of machine learning solutions in biomedical imaging
Stars: ✭ 89 (+97.78%)
ngs pipelineExome/Capture/RNASeq Pipeline Implementation using snakemake
Stars: ✭ 40 (-11.11%)
Git2rdataAn R package for storing and retrieving data.frames in git repositories.
Stars: ✭ 84 (+86.67%)
SartoolsStatistical Analysis of RNA-Seq Tools
Stars: ✭ 80 (+77.78%)
ReprozipReproZip is a tool that simplifies the process of creating reproducible experiments from command-line executions, a frequently-used common denominator in computational science.
Stars: ✭ 231 (+413.33%)
fertilecreating optimal conditions for reproducibility
Stars: ✭ 52 (+15.56%)
Ten Rules JupyterTen Simple Rules for Writing and Sharing Computational Analyses in Jupyter Notebooks
Stars: ✭ 204 (+353.33%)
rcompendium📦 Create a package or compendium structure
Stars: ✭ 26 (-42.22%)
NeurodockerGenerate custom Docker and Singularity images, and minimize existing containers
Stars: ✭ 198 (+340%)
docsDocumentation of the Snakemake-Workflows project
Stars: ✭ 123 (+173.33%)
Liftr🐳 Containerize R Markdown documents for continuous reproducibility
Stars: ✭ 155 (+244.44%)
papeRA toolbox for writing Sweave or other LaTeX-based papers and reports and to prettify the output of various estimated models.
Stars: ✭ 26 (-42.22%)
Hash EmbeddingsPyTorch implementation of Hash Embeddings (NIPS 2017). Submission to the NIPS Implementation Challenge.
Stars: ✭ 126 (+180%)
tibannaTibanna 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.
Stars: ✭ 61 (+35.56%)
DatamaidAn R package for data screening
Stars: ✭ 120 (+166.67%)
FACILFramework for Analysis of Class-Incremental Learning with 12 state-of-the-art methods and 3 baselines.
Stars: ✭ 411 (+813.33%)
renvCreating virtual environments for R.
Stars: ✭ 18 (-60%)
tourmalineAmplicon sequence processing workflow using QIIME 2 and Snakemake
Stars: ✭ 23 (-48.89%)
NextflowA DSL for data-driven computational pipelines
Stars: ✭ 1,337 (+2871.11%)
groundhogReproducible R Scripts Via Date Controlled Installing & Loading of CRAN & Git Packages
Stars: ✭ 58 (+28.89%)
DrakeAn R-focused pipeline toolkit for reproducibility and high-performance computing
Stars: ✭ 1,301 (+2791.11%)
NozzleNozzle is a report generation toolkit for data analysis pipelines implemented in R.
Stars: ✭ 59 (+31.11%)
benchmark VAEUnifying Variational Autoencoder (VAE) implementations in Pytorch (NeurIPS 2022)
Stars: ✭ 1,211 (+2591.11%)
Openml RR package to interface with OpenML
Stars: ✭ 81 (+80%)
rna-seq-kallisto-sleuthA Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
Stars: ✭ 56 (+24.44%)
ContaineritPackage an R workspace and all dependencies as a Docker container
Stars: ✭ 248 (+451.11%)
Drake ExamplesExample workflows for the drake R package
Stars: ✭ 57 (+26.67%)
KervolutionKervolution implementation using TF2.0
Stars: ✭ 20 (-55.56%)
ngs-test-dataA workflow for creating small NGS test data sets, useful for continuous integration.
Stars: ✭ 19 (-57.78%)
attr-gatherHit a million different APIs and combine the results in one simple hash (without pulling your hair out). A simple workflow system to gather aggregate attributes for something.
Stars: ✭ 30 (-33.33%)
CanvasxpressJavaScript VisualizationTools
Stars: ✭ 247 (+448.89%)