Psst! I've posted some details about my notebook setup here.

Why can't blastdb_aliastool take plain old sequence IDs?

Imagine you have a genome sequence in a Fasta formatted file: a human reference genome from Ensemble, for example. Now imagine that you want to perform BLAST searches against this genome

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Searching for TSA master records at NCBI

The NCBI Transcript Shotgun Assembly database is the go-to place for submitting transcript assemblies for long-term archival and public access. However, TSA is not one of the database options provided when doing keyword searches at NCBI. TSA sequences are available through the nuccore nucleotide database, along with all other DNA and RNA sequences.

If you want to search NCBI exclusively ...

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