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3 votes

Kallisto RNA-seq errors because of incompatible indices when running <kallisto quant> using downloaded mouse index

It means that the version of the tool used for indexing and your current version are different and not compatible. Either downgrade your version to the version used for indexing, or build a new index ...
ATpoint's user avatar
  • 1,108
3 votes

issue with rna seq analysis

Several issues: There is no non-coding RNA genome. There are non-coding genes but the genome fasta files from Ensembl are always the entire genome and this is what you should align against. Probably ...
ATpoint's user avatar
  • 1,108
1 vote

Mitochondrial genes - TPM calculation bulk RNA-Seq

Yes, this is a common situation. Not just for mitochondrial genes, but for any gene that may be an outlier (e.g. the B-cell receptor gene in a contaminant/unexpected B-cell population). The way to get ...
gringer's user avatar
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