jeskowagner

jeskowagner's Stars

• xitanggg/open-resume

  OpenResume is a powerful open-source resume builder and resume parser. https://open-resume.com/

  Language:TypeScript7.1k3494701

• wei/pull

  🤖 Keep your forks up-to-date via automated PRs

  Language:TypeScript6.4k63191683

• ccontavalli/ssh-ident

  Different agents and different keys for different projects, with ssh.

  Language:Python969264570

• computational-cell-analytics/micro-sam

  Segment Anything for Microscopy

  Language:Jupyter Notebook380723647

• scverse/rapids_singlecell

  Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.

  Language:Python16276823

• interactivereport/cellxgene_VIP

  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey and dual-gene plot in high-resolution SVG/PNG format. It also performs differential gene expression analysis and provides a Command Line Interface (CLI) for advanced users to perform analysis using python and R.

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• instanseg/instanseg

  Language:Python12931620

• single-cell-data/TileDB-SOMA

  Python and R SOMA APIs using TileDB’s cloud-native format. Ideal for single-cell data at any scale.

  Language:Python95121k25

• grst/containerize-conda

  Turn an existing conda environment into a Singularity container

  Language:Python805716

• seung-lab/fastremap

  Remap, mask, renumber, unique, and in-place transposition of 3D labeled images. Point cloud too.

  Language:C++4917166

• MannLabs/scPortrait

  Language:Python364521

• Kapoorlabs-CAPED/VollSeg

  Segmentation method able to detect membrane/nuclei-labelled cells with low signal-to-noise ratio and dense packing in 2D and 3D. Available via pip package vollseg.

  Language:Python33146

• TARGENE/TMLE.jl

  A pure Julia implementation of the Targeted Minimum Loss-based Estimation

  Language:Julia173712

• trangle1302/lmc_GenCellPaint

  First place algorithm in ISBI 2024 Light My Cell competition, label-free cell painting

  Language:Python12111

• TARGENE/targene-pipeline

  Nextflow pipeline for Targeted-Learning of genetic effects

  Language:Nextflow1131690

• openproblems-bio/neurips-2023-scripts

  Scripts associated with the 2023 Open Problems competition

  Language:Jupyter Notebook10210

• broadinstitute/monorepo

  Compendium of tools for the Imaging Platform

  Language:Python99201

• cytomining/copairs

  Find pairs and compute metrics between them.

  Language:Python96385

• CarragherLab/phenonaut

  A tool for exploration of multiomic phenotypic space

  Language:Python8202

• scleestacks/scleestacks

  A container registry for the scverse

  Language:Dockerfile8100

• theislab/jump-cpg0016-segmentation

  Snakemake pipeline used to segment the cpg0016 dataset of the JUMP-Cell Painting Consortium

  Language:Jupyter Notebook811

• WayScience/coSMicQC

  Single cell Morphology Quality Control (coSMicQC)

  Language:Python71683

• MMV-Lab/LightMyCells

  repo for ISBI 2024 "LightMyCells" challenge

  Language:Jupyter Notebook41

• WayScience/cellpainting_predicts_cardiac_fibrosis

  Image-based profiling and machine learning to predict failing vs. non-failing cardiac fibroblasts

  Language:Jupyter Notebook40124

• SCEMA-WSI/scematk

  Single Cell Extraction and Morphological Analysis of Whole Slide Images

  Language:Python3101

• hwarden162/HGUTheme

  Language:R2100

• WayScience/targeted_fibrosis_drug_screen

  Image analysis and image-based profiling of a fibrosis drug screen to identify compound hits using a machine learning model.

  Language:Jupyter Notebook2112

• edbiomedai/ProfileMorphology

  Language:Nextflow110

• timtreis/2023_Arevalo_BatchCorrection

  Evaluating batch correction methods for image-based cell profiling

  Language:Jupyter Notebook1021

• WayScience/CFReT-compound-prioritization-analysis

  Language:Jupyter Notebook1101