Hello everyone! I am doing rat RNA-seq analysis, previously using tophat2, as HISAT2 is a successor for tophat2, I plan to switch to it. And no pre-built indexs exist for Rat, hence I am going to build manually but I am wondering is it necessary and available to build Hierarchical Graph FM index (HGFM) for a reference genome plus transcripts for rat? For example, with reference genome plus transcriptome sequence of rat as input for HISAT2-build ?
Question: Could HISAT2-build build Hierarchical Graph FM index (HGFM) for a reference genome plus transcripts for Rat (for example, Rn6)
2.5 years ago by
Peng Huang • 50
Peng Huang • 50 wrote:
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