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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

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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

brineylab/scab
  • * requirements.txt

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

007gzs/test
  • * requirements.txt

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