GLDS-352_CRA_SS_output_files

Name: GLDS-352_CRA_SS_output_files
Creator: figshare
Published: 2024-07-13 00:03:41
License: 暂无描述

DataCite Commons2024-07-13 更新2024-08-19 收录

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The attached filtered gene count data were generated from the snRNAseq (GEX) fastq files hosted on OSDR: https://osdr.nasa.gov/bio/repo/data/studies/OSD-352/7The following commands were used:Cell Ranger ARC command:Used Cellranger Arc 2.0.2 for data processing<pre><pre>cellranger-arc count --jobmode=local \ --localcores=32 \ --localmem=115 \ --id=${SAMPLE} \ --reference=/cellranger/refdata-cellranger-arc-mm10-2020-A-2.0.0 \ --libraries=${SAMPLE}_info.csv</pre></pre>STARsolo command:Used STAR 2.7.10a for data processing<pre><pre>STAR --runThreadN 18 \ --genomeDir $genomeDir \ --soloType CB_UMI_Simple \ --clipAdapterType CellRanger4 \ --outFilterScoreMin 30 \ --soloCBmatchWLtype 1MM_multi_Nbase_pseudocounts \ --soloUMIfiltering MultiGeneUMI_CR \ --soloUMIdedup 1MM_CR \ --soloUMIlen 12 \ --soloCellFilter EmptyDrops_CR $expectedCells 0.99 10 45000 90000 500 0.01 20000 0.01 10000 \ --soloMultiMappers EM \ --outSAMattributes NH HI nM AS CR UR GX GN sS sQ sM \ --outSAMtype BAM Unsorted \ --soloFeatures Gene GeneFull SJ Velocyto \ --readFilesCommand zcat \ --soloCBwhitelist $whitelist \ --outFileNamePrefix $outDir/${sample}/${sample}_ \ --readFilesIn $fastqDir/${sample}_R2_raw.fastq.gz $fastqDir/${sample}_R1_raw.fastq.gz</pre></pre>

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figshare

创建时间：

2024-07-13

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