Comments (2)
Hi, @kepbod,
kb
matches the chromosomes in the reference FASTA and GTF by their full strings, so you will have to either add or remove any prefixes (i.e. chr
) so that they all match. We can look into adding an option to kb ref
to specify (and ignore) prefixes.
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Related Issues (20)
- Effective length normalization for full-length UMI scRNA-seq data HOT 8
- kallisto index file not found index.idx_cdna HOT 3
- If it doesn't exist yet, is it possible to add an option that filters the genes by abundance HOT 3
- Signals.SIGILL: 4 when running kb ref HOT 5
- kb count settings/config for the new 10x Visium (11mm capture area) dataset HOT 4
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- Issues with running RNA velocity (La Manno) analysis in kb_python 0.28.0 HOT 5
- Using kb -count with SMART-Seq mRNA LP (with UMIs) HOT 12
- Restructure unmapped SMART-seq3 BAM from ENA to proper fastqs for kb HOT 5
- Custom fasta and gtf file based on subset of genes for multiple species HOT 3
- SmartSeq3 Demultiplexed Fastq files HOT 4
- kb-python version 0.28.2 giving problems on m1 mac HOT 6
- Is kb-python capable of processing many samples in one command? HOT 2
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- Containerized kb can choose the wrong binary HOT 1
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- Crosspost from kallistobustools: kb count error with CSP reads HOT 21
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