Bowtie2 and hisat2 indexes
1 answer
No you can't (LINK).
Hisat2 uses some code from Bowtie2 but makes use of a different underlying index (first it was a hierarchical FM index, now its a hierarchical graph FM index) that is more cache friendly than what Bowtie2 uses (a relatively standard FM index).
Log in to answer this question.
More posts like this
-
alignment to human transcriptome with Bowtie2
written by Meghan.T •
-
Bowtie2 and Hisat2 which tool should I use?
written by ja4123 •
-
Differences in HISAT2 indexes for download
written by vitor •
-
Issues with genome indexing with bowtie2-build
written by Elisa •
-
Bowtie2 unpaired mode usage
written by Jimpix •
-
genome assembly vs genome annotation
written by Zeinab.mokhtar •
-
HISAT2 index choice- practical impact of aligning to GRCh38_genome vs. GRCh38_genome_tran
written by jimjamt •
-
Difference between HISAT2 grch38 and grch38_snp indexes
written by ScubaChris •
-
What is the difference between HISAT2 index "genome.tran" and "genome"
written by Chevy Xu •
-
HISAT2 indexes, GRCm38 or mm10?
written by Buffo
