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CITE-seq protein and mRNA counts
Version 2 2020-01-21, 04:28
Version 1 2019-06-21, 21:26
dataset
posted on 2020-01-21, 04:28 authored by Gennady GorinGennady Gorin, Valentine SvenssonValentine Svensson, Lior PachterLior PachterProtein counts were acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100866.
LOOM was generated from FASTQ.
cellranger processing:
cellranger count --id=(desired bam directory) --transcriptome=(transcriptome directory) --fastqs=(fastq directory) --localcores=40 --localmem=100 --chemistry=SC3Pv2
velocyto processing:
velocyto run10x --samtools-threads 60 --samtools-memory 5000 (desired bam directory) (transcriptome directory)/genes/genes.gtf
