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### Description of feature
Dear all
I just found out that in commit https://github.com/nf-core/scrnaseq/commit/aae5fc5f618d1a4ccd40428d14050d838876f7fe we moved away from having ensembl_gene_ids a…
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> tr2g2
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There is no clear reason why this would be the case:
Here is
***the command line:
-bash-4.2$ kallisto quant –i 170406001815.105.cap.contigs_and_singletons.selected.idx -o sample209 -b 100 pe_HSR00…
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Under some circumstances, the POS field of some reads in the pseudo-bam file are shifted by a few bases. The read will not match the sequence in these cases.
About 1-2% of reads show this behavior…
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http://firebrowse.org/api-docs/#!/Samples
https://rpubs.com/lwaldron/TCGA_prad
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0106397
https://www.ncbi.nlm.nih.gov/pubmed/26704…
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I would like to run `kallisto bus` on Smart-seq3 data. The data consists of paired-end reads with a UMI at the start of the first read and no cell barcode. Both the first and the second read contain c…
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Whenever I run kallisto bus with 10xv1, I'm getting "Segmentation Fault: 11" with no further detail. Any advice?
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Hi there,
I'm currently evaluating whether we could use kallisto/pizzly for fusion gene prediction. However, for some samples I realized that kallisto is somehow freezing at BAM indexing (waited for …
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Hi Salmon team
Are there plans afoot to support quantification of scRNA-seq data with unique molecular identifiers (UMIs)? UMIs are very commonly used in scRNA-seq data now, and correct quantificatio…
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Linuxにて作業をしています。
下記のように、104ページのkallistoの出力ファイルを読み込むを実行しました。
> so