Ecosyste.ms: Repos

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Package Usage: pypi: scanorama

Panoramic stitching of heterogeneous single cell transcriptomic data
24 versions
Latest release: 8 months ago
15 dependent packages
2,845 downloads last month

View more package details: https://packages.ecosyste.ms/registries/pypi.org/packages/scanorama

View more repository details: https://repos.ecosyste.ms/hosts/GitHub/repositories/brianhie%2Fscanorama

Dependent Repos 31

lazappi/openproblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-python-batch-integration/requirements.txt

Size: 90.5 MB - Last synced: 9 months ago - Pushed: about 1 year ago

bedapub/besca
BESCA (Beyond Single Cell Analysis) offers python functions for single-cell analysis
  • ==1.7.1 devtools/requirements.txt
  • * requirements.txt

Size: 484 MB - Last synced: 7 days ago - Pushed: about 2 months ago

brineylab/scab
  • * requirements.txt

Size: 2.56 MB - Last synced: 10 days ago - Pushed: 11 days ago

danielStrobl/SingleCellOpenProblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-r-pytorch/requirements.txt

Size: 77.4 MB - Last synced: 11 months ago - Pushed: about 1 year ago

czbiohub-sf/excellxgene
  • >=1.7.1 backend/server/requirements.txt

Size: 303 MB - Last synced: 4 days ago - Pushed: 3 months ago

aertslab/pycisTopic
pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  • * requirements.txt

Size: 33.2 MB - Last synced: 5 days ago - Pushed: about 1 month ago

afrendeiro/toolkit
A toolkit for NGS analysis with Python
  • * requirements/requirements.single_cell.txt

Size: 1.56 MB - Last synced: about 1 month ago - Pushed: over 1 year ago

BiomedicalMachineLearning/Medulloblastoma
  • ==1.7.1 requirements.txt

Size: 12.9 MB - Last synced: 13 days ago - Pushed: about 1 year ago

NCBI-Codeathons/automated-sc-RNA-seq-analysis-in-the-cloud
  • ==1.4 context_annotations/requirements-freeze.txt

Size: 290 KB - Last synced: 9 days ago - Pushed: over 1 year ago

openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-r-pytorch/requirements.txt

Size: 73.1 MB - Last synced: 12 days ago - Pushed: 4 months ago

xuesoso/singleToxoplasmaSeq 📦
A respository that includes scripts and jupyter notebooks to re-generate analysis results of "A single-parasite transcriptional atlas of Toxoplasma gondii reveals novel control of antigen expression" (2020).
  • ==1.0 requirements.txt

Size: 5.9 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

VergaJU/OnClass
OnClass repo to work with my datasets
  • ==1.7.2 env/requirements.txt

Size: 36.1 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

QuLab-VU/NotchDynamics_SCLC
  • * environment.yml

Size: 58.2 MB - Last synced: about 1 year ago - Pushed: over 2 years ago

immunomind/bi2021spring
A project for students from Bioinformatics Institute Spring 2021 class.
  • ==1.7.1 requirements.txt

Size: 89.4 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago

paulgeser/test
  • ==1.7.1 devtools/requirements.txt
  • * requirements.txt

Size: 292 MB - Last synced: about 1 month ago - Pushed: almost 2 years ago

wangshenguiuc/OnClass
Single cell typing based on cell ontology
  • >=1.7.1 setup.py

Size: 2.29 MB - Last synced: 15 days ago - Pushed: 6 months ago

noobCoding/Benchmarking-integration-of-differential-expression
  • ==1.7.2 requirements.txt

Size: 77.8 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

Kongyj/AdNS
The code for AdNS
  • ==1.7.1 AdNS/requirements.txt

Size: 185 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

mdmanurung/integratune 📦
  • 1.7.2 poetry.lock
  • ^1.7.2 pyproject.toml

Size: 804 KB - Last synced: about 1 year ago - Pushed: over 1 year ago

jpreall/FTPS_2022
CSHL Plant Science Course, Single Cell Lectures, 2022
  • ==1.7.2 environment.yml

Size: 24.1 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

smgroves/mazebox
A collection of bioinformatics tools for analyzing single-cell transcriptomics data.
  • * setup.py

Size: 41 KB - Last synced: 2 months ago - Pushed: 4 months ago

DendrouLab/sc_pipelines_PSC
  • ==1.6 requirements.txt

Size: 70.3 KB - Last synced: about 1 year ago - Pushed: over 2 years ago

yz26cn/biotranslator
  • >=1.7.1 requirements.txt
  • >=1.7.1 setup.py

Size: 216 KB - Last synced: 16 days ago - Pushed: 6 months ago

DendrouLab/panpipes
Multi-modal single cell analysis pipelines
  • ==1.7.2 requirements.txt
  • * pyproject.toml

Size: 2.44 MB - Last synced: 16 days ago - Pushed: 16 days ago

giovp/SingleCellOpenProblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7. docker/openproblems-python-batch-integration/requirements.txt

Size: 90.1 MB - Last synced: about 1 month ago - Pushed: 9 months ago

dbdimitrov/openproblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7. docker/openproblems-python-batch-integration/requirements.txt

Size: 78.1 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

smgroves/EMT_SCLC_project
  • * environment.yml

Size: 41.7 MB - Last synced: 2 months ago - Pushed: over 1 year ago

wes-lewis/SingleCellOpenProblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-r-pytorch/requirements.txt

Size: 90.8 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

BoevaLab/CanSig-Supplementary-Information
This repository supplements the CanSig tool (https://github.com/boevaLab/cansig), providing additional information on performed experiments.
  • * benchmark/requirements.txt

Size: 29.8 MB - Last synced: 14 days ago - Pushed: about 1 year ago

smgroves/Notch-SCLC
A repo for RPM analysis + other Notch analyses for paper with Geena
  • * environment.yml

Size: 35.2 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

LuckyMD/SingleCellOpenProblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7. docker/openproblems-python-batch-integration/requirements.txt

Size: 76.3 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

vitkl/openproblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-python-batch-integration/requirements.txt

Size: 72.6 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

mxposed/SingleCellOpenProblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-r-pytorch/requirements.txt

Size: 90.5 MB - Last synced: about 1 month ago - Pushed: about 1 year ago

scottgigante-immunai/openproblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-python-batch-integration/requirements.txt

Size: 73 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

dburkhardt/pycisTopic Fork of aertslab/pycisTopic
pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  • * requirements.txt

Size: 32.3 MB - Last synced: 2 months ago - Pushed: over 1 year ago

marilin99/sc_quality_analysis
  • ==1.7.2 requirements.txt

Size: 1.8 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

007gzs/test
  • * requirements.txt

Size: 1.6 MB - Last synced: 5 months ago - Pushed: 5 months ago

cellgeni/jupyter-images
Cellular Genetics Informatics Docker Images for Jupyter
  • * images/full/environment.yml
  • * images/python/environment.yml

Size: 109 KB - Last synced: 3 days ago - Pushed: 3 days ago

GeertvanGeest/scs-docker
Dockerfiles for images hosted at https://hub.docker.com/r/geertvangeest/single_cell_summerschool
  • * general_exercises/jupyter/requirements.txt

Size: 22.5 KB - Last synced: 10 months ago - Pushed: over 2 years ago

zappuf/single_cell_basics
  • ==1.7.2 environment.yml

Size: 733 KB - Last synced: 10 months ago - Pushed: almost 2 years ago

paulgeser/besca-bfg
  • ==1.7.1 devtools/requirements.txt
  • * requirements.txt

Size: 257 MB - Last synced: about 1 month ago - Pushed: over 1 year ago

szhorvat/openproblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • ==1.7.0 docker/openproblems-r-pytorch/requirements.txt

Size: 73.1 MB - Last synced: 10 months ago - Pushed: 10 months ago

utkarsh0493/openproblems Fork of openproblems-bio/openproblems
Formalizing and benchmarking open problems in single-cell genomics
  • * docker/openproblems-python-batch-integration/requirements.txt

Size: 79.7 MB - Last synced: 10 months ago - Pushed: about 2 years ago

jpreall/FTPS_2023
CSHL Plant Sciences Course Single-Cell Analysis, 2023
  • ==1.7.2 environment.yml

Size: 29.6 MB - Last synced: 10 months ago - Pushed: 10 months ago

JieZhou8221/Colorectal-Cancer-Survival-Analysis
A pipeline for survival analysis using machine learning models
  • ==1.7.3 environment.yml

Size: 21.1 MB - Last synced: 10 months ago - Pushed: 10 months ago

laugarvi/cellxgene Fork of czbiohub-sf/cellxgene
An interactive explorer for single-cell transcriptomics data
  • >=1.7.1 backend/server/requirements.txt

Size: 251 MB - Last synced: about 1 month ago - Pushed: over 2 years ago

STOmics/stereoAlign
A toolkit for data integration
  • * setup.py

Size: 9.1 MB - Last synced: about 1 month ago - Pushed: 9 months ago

ZhaiLab-SUSTech/sc_medicago
  • * notebooks/jpy_tools/requirements_conda.txt

Size: 18.9 MB - Last synced: 9 months ago - Pushed: 9 months ago

deepsystemspharmacology/automated-sc-RNA-seq-analysis-in-the-cloud Fork of NCBI-Codeathons/automated-sc-RNA-seq-analysis-in-the-cloud
  • ==1.4 context_annotations/requirements-freeze.txt

Size: 337 KB - Last synced: 8 months ago - Pushed: over 3 years ago

typekey/scib Fork of theislab/scib
Benchmarking analysis of data integration tools
  • ==1.2 environment.yaml
  • ==1.7.0 requirements_extra.txt

Size: 351 MB - Last synced: 8 months ago - Pushed: about 3 years ago

andrecossa5/MDA_coevolution
MDA_coevolution_project
  • ==1.7.2 envs/environment.yml

Size: 8.79 KB - Last synced: 8 months ago - Pushed: 8 months ago

biomage-org/pipeline Fork of hms-dbmi-cellenics/pipeline
The Cellenics pipeline project for dependency-managed work processing.
  • ==1.7.3 pipeline-runner/requirements.txt

Size: 35.6 MB - Last synced: 26 days ago - Pushed: 26 days ago

liuzj039/jpy_tools
  • * jModule/requirements_conda.txt

Size: 270 MB - Last synced: 2 days ago - Pushed: 3 days ago

JuliaChristiaanse/scRNAseq_analysis_pipeline_EMC
  • * Pipfile
  • ==1.7.3 Pipfile.lock

Size: 779 KB - Last synced: 6 months ago - Pushed: 6 months ago

hms-dbmi-cellenics/pipeline
The Cellenics pipeline project for dependency-managed work processing.
  • ==1.7.3 pipeline-runner/requirements.txt

Size: 42.8 MB - Last synced: 3 days ago - Pushed: 4 days ago

brineylab/containers
  • * requirements/abx_pip.txt

Size: 220 KB - Last synced: 2 days ago - Pushed: 2 days ago

sansomlab/cellhub
Python pipelines for large-scale multimodal single-cell data analysis on HPC clusters
  • * python/requirements.txt

Size: 8.84 MB - Last synced: 2 months ago - Pushed: 3 months ago

berenslab/eff-ph
Persistent homology for high-dimensional data based on spectral methods
  • ==1.7.3 environment.yml

Size: 17.7 MB - Last synced: 12 days ago - Pushed: 17 days ago

LieberInstitute/spatialDLPFC
spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples
  • ==1.7.2 code/gene-risk-LR-analysis/requirements/.ipynb_checkpoints/requirements-checkpoint.txt

Size: 14.9 GB - Last synced: 3 days ago - Pushed: 3 days ago

TimE9527/stDGCC
  • ==1.7.4 environment.yml

Size: 1.34 GB - Last synced: about 1 month ago - Pushed: about 1 month ago

YosefLab/PopV
  • 1.7.4 poetry.lock
  • ^1.7.3 pyproject.toml

Size: 279 MB - Last synced: 4 days ago - Pushed: 4 days ago

dsb-lab/Docker-single-cell-analysis
  • * requirements.txt

Size: 151 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

LMH0066/SEE
a Single-cell method for predicting Chromatin Conformation based on gene Expression
  • ==1.7.3 environment.yml

Size: 264 MB - Last synced: 16 days ago - Pushed: about 2 months ago

Thnine/scHLens_be_fbd
毕设版后端
  • ==1.7.2 requirements.txt

Size: 33.8 MB - Last synced: about 1 month ago - Pushed: 3 months ago

StickTaTa/ResST_main
A deep learning framework for spatial transcriptomics
  • ==1.7.2 requirements.txt

Size: 41.2 MB - Last synced: 14 days ago - Pushed: 14 days ago

Rafael-Silva-Oliveira/EzML
customizable pipeline to train different ML classifiers (15+) from sklearn with hyperparameter tuning, feature selection and feature pre-processing
  • ==1.7.4 requirements.txt

Size: 12.5 MB - Last synced: 2 months ago - Pushed: 3 months ago

Rafael-Silva-Oliveira/STNav
  • ==1.7.4 requirements.txt

Size: 34 MB - Last synced: about 1 month ago - Pushed: about 1 month ago

mgy520/STpipe
  • ==1.7.4 setup.py

Size: 2.28 MB - Last synced: 25 days ago - Pushed: 25 days ago