Ecosyste.ms: Repos
An open API service providing repository metadata for many open source software ecosystems.
Package Usage: pypi: scrublet
Doublet prediction in single-cell RNA-sequencing data
4 versions
Latest release: over 3 years ago
12 dependent packages
3,751 downloads last month
View more package details: https://packages.ecosyste.ms/registries/pypi.org/packages/scrublet
View more repository details: https://repos.ecosyste.ms/hosts/GitHub/repositories/swolock%2Fscrublet
Dependent Repos 34
MaayanLab/appyter-catalog
A catalog of appyter notebooks- ==0.2.3 appyters/CITEseq/requirements.txt
Size: 209 MB - Last synced: 24 days ago - Pushed: 3 months ago
sxie04/appyter-catalog Fork of MaayanLab/appyter-catalog
A catalog of appyter notebooks- ==0.2.3 appyters/scRNA_seq/requirements.txt
- ==0.2.3 appyters/CITEseq/requirements.txt
Size: 183 MB - Last synced: about 1 year ago - Pushed: over 1 year 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
csgroen/scycle
Cell cycle pseudotime in single-cell RNA-seq- * setup.py
Size: 34.7 MB - Last synced: 10 months ago - Pushed: about 1 year ago
shahcompbio/shahlab_scrna_apps
- ==0.2.1 apps/gex_analysis/requirements.txt
Size: 31.3 KB - Last synced: 10 months ago - Pushed: almost 3 years ago
rbeagrie/alpha-tiledc
Scripts and analysis for Alpha-globin Tiled-C paper- ==0.2.1 requirements.txt
Size: 4.46 MB - Last synced: about 1 year ago - Pushed: over 1 year ago
NUPulmonary/utils
Collection of useful scripts, largely for sequence analysis- * single-cell-template/Pipfile
Size: 3.45 MB - Last synced: 4 days ago - Pushed: 4 days ago
QuLab-VU/NotchDynamics_SCLC
- * environment.yml
Size: 58.2 MB - Last synced: about 1 year ago - Pushed: over 2 years ago
ebi-gene-expression-group/scanpy-scripts
Scripts for using scanpy- * setup.py
Size: 492 KB - Last synced: 17 days ago - Pushed: 3 months ago
SchubertLab/mvTCR
- ==0.2.3 requirements.txt
Size: 115 MB - Last synced: 10 days ago - Pushed: about 2 months ago
beyondpie/smmtools
single-cell multi-omics tools- * inst/smmuty/setup.py
Size: 21.9 MB - Last synced: 14 days ago - Pushed: almost 2 years ago
j-germino/scrnatools-git
Helper methods for scRNAseq processing using scanpy + scVI- * setup.py
Size: 25.1 MB - Last synced: 9 months ago - Pushed: 9 months ago
gonzalosm98/scRNA-SeqAnalysis
- =0.2.3=py36h4c5857e_0 requirements.txt
Size: 62.5 KB - Last synced: about 1 year ago - Pushed: over 1 year 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
- ==0.2.1 requirements.txt
Size: 70.3 KB - Last synced: about 1 year ago - Pushed: over 2 years ago
clatworthylab/dandelion Fork of zktuong/dandelion
dandelion - A single cell BCR-seq analysis package for 10X Chromium 5' data- * environment.yml
Size: 390 MB - Last synced: about 1 year ago - Pushed: about 1 year ago
DendrouLab/panpipes
Multi-modal single cell analysis pipelines- ==0.2.3 requirements.txt
- * pyproject.toml
Size: 2.44 MB - Last synced: 16 days ago - Pushed: 16 days ago
schwab-lab/annotateCSF
Python GUI tool for annotation of scRNAseq datasets containing CSF immune cells.- ==0.2.3 requirements_linux.txt
- ==0.2.3 requirements_minimal.txt
- ==0.2.3 requirements_win.txt
Size: 25.5 MB - Last synced: 7 months ago - Pushed: 7 months ago
smgroves/EMT_SCLC_project
- * environment.yml
Size: 41.7 MB - Last synced: 2 months ago - Pushed: over 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
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
getzlab/mudi
A collection of downstream python single-cell utilities.- * setup.py
Size: 15.6 MB - Last synced: 12 days ago - Pushed: about 1 year ago
marilin99/sc_quality_analysis
- ==0.2.3 requirements.txt
Size: 1.8 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago
Scriddie/CCSL-ID
Continuous Causal Structure Learning from Interventional Data- ==0.2.3 requirements.txt
Size: 7.64 MB - Last synced: about 1 year ago - Pushed: over 2 years ago
dsb-lab/Docker-single-cell-tutorial
- ==0.2.3 requirements.txt
Size: 177 KB - Last synced: 9 months ago - Pushed: over 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
drearondov/NLP-newspapersAnalysis
End-to-end NLP Project of news headlines for the main newspapers of Perú- 0.2.3 poetry.lock
Size: 9.2 MB - Last synced: 14 days ago - Pushed: 5 months 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
deepcell/mavropoulos_2022
- 0.2.3 pipeline/poetry.lock
- ^0.2.3 pipeline/pyproject.toml
Size: 1.32 MB - Last synced: about 1 year ago - Pushed: over 1 year ago
avikdatta/binder_test_repo
- * environment.yml
Size: 311 KB - Last synced: about 1 year ago - Pushed: over 4 years ago
gatocor/sc_interactive
- * docker_sc_interactive/requirements.txt
Size: 2.69 MB - Last synced: 7 months ago - Pushed: 7 months ago
GenomicsNX/dandelion Fork of zktuong/dandelion
dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data- * environment.yml
Size: 389 MB - Last synced: about 2 months ago - Pushed: over 1 year ago
GenomicsNX/scanpy-scripts Fork of ebi-gene-expression-group/scanpy-scripts
Scripts for using scanpy- * setup.py
Size: 387 KB - Last synced: about 2 months ago - Pushed: over 2 years ago
MarkusHaak/mvTCR_reproducibility Fork of SchubertLab/mvTCR_reproducibility
Reproducibility Repo for mvTCR paper- ==0.2.3 requirements.txt
Size: 181 MB - Last synced: 9 months ago - Pushed: over 1 year ago
MarkusHaak/mvTCR Fork of SchubertLab/mvTCR
- ==0.2.3 requirements.txt
Size: 114 MB - Last synced: 9 months ago - Pushed: over 1 year ago
Starlitnightly/omicverse
A python library for multi omics included bulk and single cell RNA-seq analysis.- >=0.2 pyproject.toml
Size: 604 MB - Last synced: 5 months ago - Pushed: 6 months ago
schae211/VisiumMS_copy
- ==0.2.3 environment.yml
Size: 4.86 MB - Last synced: 10 months ago - Pushed: 10 months ago
ssyamoako/NGS_summer_course_Aarhus Fork of hds-sandbox/NGS_summer_course_Aarhus
Repository for the NGS summer course at Aarhus university- ==0.2.3 Environments/environment.yml
Size: 119 MB - Last synced: 10 months ago - Pushed: 11 months ago
RoganGrant/utils Fork of NUPulmonary/utils
Collection of useful scripts, largely for sequence analysis- * single-cell-template/Pipfile
Size: 3.4 MB - Last synced: 10 months ago - Pushed: over 2 years ago
hai178912522/omicverse Fork of Starlitnightly/omicverse
A python library for multi omics included bulk and single cell RNA-seq analysis.- >=0.2 pyproject.toml
Size: 132 MB - Last synced: about 1 month ago - Pushed: 9 months ago
leuschjanphilipp/mvTCR_reproducibility Fork of SchubertLab/mvTCR_reproducibility
Reproducibility Repo for mvTCR paper- ==0.2.3 requirements.txt
Size: 219 MB - Last synced: 9 months ago - Pushed: 9 months ago
das2000sidd/2020_Bharat Fork of NUPulmonary/2020_Bharat
Analysis accompanying Bharat et al., 2020 manuscript- ==0.2.1 Pipfile
- ==0.2.1 Pipfile.lock
Size: 27.2 MB - Last synced: 9 months ago - Pushed: over 3 years ago
leuschjanphilipp/mvTCR Fork of SchubertLab/mvTCR
- ==0.2.3 requirements.txt
- ==0.2.3 requirements_newenv.txt
Size: 123 MB - Last synced: 3 days ago - Pushed: 3 days ago
JuliaChristiaanse/scRNAseq_analysis_pipeline_EMC
- * Pipfile
- ==0.2.3 Pipfile.lock
Size: 779 KB - Last synced: 6 months ago - Pushed: 6 months ago
scHEARTGROUP/qclus
- * requirements.txt
Size: 1.4 MB - Last synced: 2 months ago - Pushed: 2 months ago
amoschoomy/dandelion Fork of zktuong/dandelion
dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data- * environment.yml
Size: 419 MB - Last synced: 4 months ago - Pushed: 4 months ago
imperial-genomics-facility/igf-dockerfiles
A list of dockerfiles for Docker and singularity image building- ==0.2.3 scanpy/requirements_v1.9.3.txt
Size: 138 KB - Last synced: 15 days ago - Pushed: 16 days ago
brineylab/containers
- * requirements/abx_pip.txt
Size: 220 KB - Last synced: 3 days ago - Pushed: 3 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
LieberInstitute/spatialDLPFC
spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples- ==0.2.3 code/gene-risk-LR-analysis/requirements/.ipynb_checkpoints/requirements-checkpoint.txt
Size: 14.9 GB - Last synced: 3 days ago - Pushed: 3 days ago
settylab/worm-glia-atlas
Repository for tutorials and reproducibility notebooks for the worm glia scRNA-seq atlas- ==0.2.3 envs/environment.yml
- ==0.2.3 envs/requirements.txt
Size: 98.7 MB - Last synced: 6 months ago - Pushed: 6 months ago
j-germino/fezf2-thymus
- ==0.2.3 requirements.txt
Size: 2.11 GB - Last synced: 25 days ago - Pushed: 25 days ago
dsb-lab/Docker-single-cell-analysis
- * requirements.txt
Size: 151 MB - Last synced: about 1 month ago - Pushed: about 1 month ago
Jenil-Dobariya/DCVAEimpl
- * scvi_tools.egg-info/requires.txt
Size: 16 MB - Last synced: about 1 month ago - Pushed: 4 months ago
FarzamTP/BioNet
- ==0.2.3 requirements.txt
Size: 116 MB - Last synced: about 2 months ago - Pushed: about 2 months ago
basvaat/RIDDEN_analysis
RIDDEN: Data-driven inference of receptor activity for cell-cell communication studies - Analysis files- ==0.2.3 environment.yaml
Size: 4.03 MB - Last synced: 3 months ago - Pushed: 3 months ago
Rafael-Silva-Oliveira/EzML
customizable pipeline to train different ML classifiers (15+) from sklearn with hyperparameter tuning, feature selection and feature pre-processing- ==0.2.3 requirements.txt
Size: 12.5 MB - Last synced: 3 months ago - Pushed: 3 months ago
CahanLab/oneSC
infer transcription factors circuits, simulate single cell expression trajectories- ==0.2.3 requirements.txt
Size: 1.61 MB - Last synced: 3 days ago - Pushed: 3 days ago
Rafael-Silva-Oliveira/STNav
- ==0.2.3 requirements.txt
Size: 34 MB - Last synced: about 1 month ago - Pushed: about 1 month ago
dongchen1998/mtd
mtd projetc- ==0.2.3 omic_analysis/environment.yml
Size: 203 MB - Last synced: about 1 month ago - Pushed: about 1 month ago
EkaterinShitik/Single_cell_workshop
The repository for training with single_cell data in BI- ==0.2.3 environment.yaml
Size: 9.98 MB - Last synced: about 1 month ago - Pushed: about 1 month ago
MGI-tech-bioinformatics/DNBelab_C_Series_HT_scRNA-analysis-software
An open source and flexible pipeline to analysis high-throughput DNBelab C Series single-cell RNA datasets- * requirements.txt
Size: 34.4 MB - Last synced: 16 days ago - Pushed: 16 days ago
loosolab/SC-Framework
- * setup.py
Size: 208 MB - Last synced: 30 days ago - Pushed: about 1 month ago
hds-sandbox/NGS_summer_course_Aarhus
Repository for the NGS summer course at Aarhus university- ==0.2.3 Environments/environment.yml
Size: 134 MB - Last synced: 5 days ago - Pushed: 5 days ago
wangjiaming1503/23-12-9_52WFru_singlecell_GSE218300
- ==0.2.3 condaenv/scvi-env-4/environment.yml
- ==0.2.3 condaenv/scvi-env-4/requirements.txt
- ==0.2.3 condaenv/scvidocker/requirements.txt
Size: 23.8 MB - Last synced: 4 days ago - Pushed: 30 days ago