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
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
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