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rsem-prepare-reference arguments #209

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baizhantianyu opened this issue Feb 26, 2024 · 0 comments
Open

rsem-prepare-reference arguments #209

baizhantianyu opened this issue Feb 26, 2024 · 0 comments

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@baizhantianyu
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Dears,
I download the genome (fasta) and its annotation (GFF) of an untypical organism from JGI (Joint GenomeInstitute) database, and want to set them as reference for RNAseq analysis using the star + RSEM strategy. On my macOS, the command was as below:
rsem-prepare-reference --gff3 /ref/Aurli1_GeneCatalog_genes_20120618.gff \ --star \ --star-path /Users/xinjun/miniconda3/envs/rnaseq/bin/star \ /ref/Aurli1_AssemblyScaffolds.fasta \ /Auran_RSEM/auran_rsem

However, an error message “Invalid number of arguments!” always occurs. How to resolve this? Thanks so much.

Xinjun

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