User: connor.driscoll88

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Posts by connor.driscoll88

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Comment: C: Filtering paired reads when forward is all scRNA-seq barcode sequence
... Ah, I see that is quite simple! So the correct samtools flag be 9 (read paired (0x1) & mate unmapped (0x8))? Edit: Okay, I think it should be 13 (read paired (0x1) & read unmapped (0x4) & mate unmapped (0x8)) since the read 1 is the "read" and read 2 is the "mate." Also, I want the mate ...
written 10 weeks ago by connor.driscoll880
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Filtering paired reads when forward is all scRNA-seq barcode sequence
... Hi all, I have paired-end fastq files from a single-cell RNA seq experiment. The forward files consist of barcode reads (no usable sequence information) while the reverse reads contain transcript sequences. I'm looking for an efficient way to filter out rRNA reads, but it's a little tricky consider ...
scrna-seq alignment rna-seq written 10 weeks ago by connor.driscoll880 • updated 4 weeks ago by Biostar ♦♦ 20
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Retaining duplicate mapping
... I'm trying to perform a ChIP-Exo analysis with single-end Illumina reads (~50 bp). ChIP-Exo is similar in concept to ChIP-Seq, but produces more identical reads. So I want to ensure that my alignments are allowing for different reads to map to the exact same genomic positions. The closest thing I'm ...
alignment chip-exo written 18 months ago by connor.driscoll880 • updated 17 months ago by h.mon23k

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