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Hi,Alex Thanks for reading my question: here are my parameters: STAR --runThreadN 8 --genomeDir /home/dii/data/ref_gene/mouse/STAR_anno --readFilesIn /home/dii/data/GEGA/raw_RNAseq/MBc/raw_data/first_100_SRR25388161_2.fastq /home/dii/data/GEGA/raw_RNAseq/MBc/raw_data/first_100_SRR25388161_1.fastq --soloType CB_UMI_Complex --soloStrand Forward --soloUMIposition 0_0_0_8 --soloCBposition 0_9_0_16 0_48_0_55 --soloCBmatchWLtype 1MM --soloFeatures Gene --soloCBwhitelist /home/dii/data/GEGA/raw_RNAseq/scRNA_barcode/bc1_whitelist1.txt /home/dii/data/GEGA/raw_RNAseq/scRNA_barcode/bc2_whitelist2.txt --outFileNamePrefix /home/dii/result/GAGEseq/test/
here is the library : UMIs(9)+barcode1(8)+adopter(31)+barcode(8), in read1 [TGATGATCA]+[AGGAGAAC]+[ACTCCACGTGCTTGAGCAACGAGGTACGACA]+[GTTCTCGT]
I am not sure about my setting of --soloUMIposition 0_0_0_8 and --soloCBposition 0_9_0_16 0_48_0_55 \ since output had no UMIs or barcode :(
noNoAdapter 0 noNoUMI 0 noNoCB 0 noNinCB 0 noNinUMI 13 noUMIhomopolymer 0 noNoWLmatch 12 noTooManyMM 0 noTooManyWLmatches 0 yesWLmatchExact 0 yesOneWLmatchWithMM 0 yesMultWLmatchWithMM 0
The text was updated successfully, but these errors were encountered:
noUnmapped 0 noNoFeature 0 MultiFeature 0 subMultiFeatureMultiGenomic 0 noTooManyWLmatches 0 noMMtoWLwithoutExact 0 yesWLmatch 0 yessubWLmatchExact 0 yessubWLmatch_UniqueFeature 0 yesCellBarcodes 0 yesUMIs 0
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Hi,Alex
Thanks for reading my question:
here are my parameters:
STAR --runThreadN 8
--genomeDir /home/dii/data/ref_gene/mouse/STAR_anno
--readFilesIn /home/dii/data/GEGA/raw_RNAseq/MBc/raw_data/first_100_SRR25388161_2.fastq /home/dii/data/GEGA/raw_RNAseq/MBc/raw_data/first_100_SRR25388161_1.fastq
--soloType CB_UMI_Complex
--soloStrand Forward
--soloUMIposition 0_0_0_8
--soloCBposition 0_9_0_16 0_48_0_55
--soloCBmatchWLtype 1MM
--soloFeatures Gene
--soloCBwhitelist /home/dii/data/GEGA/raw_RNAseq/scRNA_barcode/bc1_whitelist1.txt /home/dii/data/GEGA/raw_RNAseq/scRNA_barcode/bc2_whitelist2.txt
--outFileNamePrefix /home/dii/result/GAGEseq/test/
here is the library : UMIs(9)+barcode1(8)+adopter(31)+barcode(8), in read1
[TGATGATCA]+[AGGAGAAC]+[ACTCCACGTGCTTGAGCAACGAGGTACGACA]+[GTTCTCGT]
I am not sure about my setting of --soloUMIposition 0_0_0_8 and --soloCBposition 0_9_0_16 0_48_0_55 \ since output had no UMIs or barcode :(
The text was updated successfully, but these errors were encountered: