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Answer: After running samtools, the featureCounts command crashed.
by
Kevin Blighe
★
4.0k
Hi Rui Tang,
The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot
by
Kevin Blighe
★
4.0k
Hi bioinffun,
The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to …
Answer: gene Set with high AUC score but no cells assigned to cell type
by
Kevin Blighe
★
4.0k
Hi,
You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Answer: featureCounts -L: high unassigned:mapq fraction
by
Kevin Blighe
★
4.0k
Hi Katarzyna,
The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Answer: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
Kevin Blighe
★
4.0k
Hi Joseph,
I agree with ATpoint's suggestion that pseudobulk aggregation (e.g., via aggregateData in scran or similar) would likely be f…
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