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single-cell

Here are 14 public repositories matching this topic...

fl-yu / CUT-RUNTools-2.0

CUT&RUN and CUT&Tag data processing and analysis

bioinformatics genomics single-cell chromatin tf tn5 epigenome cutntag cutnrun

Updated Mar 4, 2025
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pseudoBulk

vertesy / pseudoBulk

Cluster-specific pseudo-bulk analysis of 10X single-cell RNA-seq data by connecting Seurat to the VBC RNA-seq pipeline.

rna-seq bulk single-cell seurat split-bam pseudo-bulk

Updated Apr 7, 2020
Shell

p4rkerw / SALSA

Single Cell Allele-Specific Analysis - Containerized tool for genotyping, phasing, mapping bias correction, and generation of single cell allele-specific counts

bioinformatics single-cell genotype single-cell-rna-seq allele-specific single-cell-atac-seq

Updated Apr 25, 2024
Shell

guyleonard / sagawe

⚪ ➡️ 🔍 ℹ️ A suggested workflow, and accompanying scripts, to assemble Single Amplified Genomes (SAGs) from MDA derived Hi/MiSeq (Overlapped) Paired-End Illumina Libraries.

genome assembly mda single-cell illumina genomes sag

Updated Oct 24, 2019
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GenomicsNX / single_cell_workflow

A suggested workflow, and accompanying scripts, to assemble Single Amplified Genomes (SAGs) from MDA derived Hi/MiSeq (Overlapped) Paired-End Illumina Libraries.

single-cell

Updated Feb 28, 2017
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genepattern / Salmon.Alevin.Quant

Salmon Alevin (single cell) quantification wrapper module for GenePattern.

rna-seq single-cell single-cell-rna-seq genepattern-module

Updated Apr 19, 2022
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hisplan / docker-cellranger-atac

Dockerized Cell Ranger ATAC

docker single-cell cellranger-atac

Updated Apr 15, 2022
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Kur1sutaru / wrapper_factory

python bioinformatics r single-cell cellranger seurat-objects cellqc

Updated Jun 13, 2023
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gravitogen / scJournal

Single Cell Journalling

blog bioinformatics journal research genomics single-cell scrnaseq single-cell-analysis life-science

Updated Oct 20, 2020
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greenelab / czi-cancer-data

Downloading and processing pipelines used for single cell gene expression assays of human tumor biopsies

processing pipeline script download gene-expression cancer-genomics data-processing single-cell czi

Updated Jan 25, 2018
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pmb59 / cellranger-vdj

V(D)J T Cell and B Cell Analysis with cellranger vdj

single-cell multi vdj cellranger

Updated Feb 4, 2023
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rachadele / download-geo-fastqs

Download fastqs or supplementary files from GEO and upload to hca-util bucket

bam-files geo public-data single-cell sra 10x-genomics fastq-files human-cell-atlas smart-seq2 smart-seq

Updated Mar 26, 2024
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mardzix / scCut-Tag_2020

genomics single-cell epigenetic

Updated Jan 4, 2021
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TomKellyGenetics / cellranger_clean

10x Cell Ranger Docker Image

docker genomics scrna-seq umi single-cell scrna cellranger

Updated Sep 2, 2021
Shell

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