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Comment: Counting intronic reads in bulk RNA-seq
by
dsull
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4.2k
Correct, and I agree -- reads lying fully within introns are usually not counted for either single-cell or bulk.
Inclusion of introns in a…
Answer: Counting intronic reads in bulk RNA-seq
by
swbarnes2
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Are you sure this is appropriate for bulk RNASeq? I thought intronic reads for single cell were only counted in nuclear preps.
Answer: Single cell chemistry
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swbarnes2
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Are you sure these samples are 10x? How likey is it that the sequencing group messed up and ran the samples wrongly?
Comment: How to deal with duplicated gene IDs in TCGA RNA expression data?
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are they distinct transcript IDs but the same gene ID? can you provide any additional context?
Comment: SyntaxError (Perhaps you forgot a comma?) in snakefile when running FastQC.
by
Dhatri Badri
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that didn't work either
Answer: Why are some WES VCFs larger than others?
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Hi @kermit and prash (and others)!
Nice discussion. I wanted to offer some **biological rationales** in addition to the technical reasons …
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There is no `:` after `rule fastqc`
Comment: SyntaxError (Perhaps you forgot a comma?) in snakefile when running FastQC.
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sorry that was a typo while i was copying my code! I still get the same error
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You have too many ASV (40k) and I think this is a problem related to the denoising (DADA2) of NovaSeq 6000 sequencing data. Maybe this post…
Answer: SyntaxError (Perhaps you forgot a comma?) in snakefile when running FastQC.
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> fastq.gz".
what is the dot after `fastq.gz" ` ?
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1) I think this is just a warning
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3) look at samtools view --subsample
4) don't use loops but use…
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Hello, yes, I tried it, but I have to do my home work on university's remote computer, unfortunatelly I go an error, when I try to use abys…
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yuxiang
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how can you know the primer is not bind to other gene site? how can you desgin an experiment? I use the FISH to identify the gene, how abo…
Comment: desgin a primer for CDS
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sorry for my late reply, I am a student, my profossor ask me to dsgin a primer for the specific cDNA, I have solved now, thanks for your re…
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In this case filtering for quality might help correct for this overattributing feature?
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