Question: rem-synthesis-reference-transcripts : No such file or directory! RSEM-EVAL QUESTION
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gravatar for nikelle.petrillo
4.3 years ago by
Providence College, Providence, RI
nikelle.petrillo100 wrote:

 

Hello. I am new to RNA seq. I assembled a transcriptome via Trinity. I would now like to assess the quality of my transcriptome.

I tried this string of commands using RSEM-EVAL: 

npetrill@trogdor rsem-eval]$ ./rsem-eval-calculate-score --paired-end R1V22_B9F8St_ACTTGA_L002_R1_001.qualitytrimmer30.fastq R1V22_B9F8St_ACTTGA_L002_R2_001.qualitytrimmer30.fastq Trinity.fasta /home/richardsonlab/AMMA_transcripts/trinity_out_dir/rsem_eval_1.fa 100

rsem-synthesis-reference-transcripts /home/richardsonlab/AMMA_transcripts/trinity_out_dir/rsem_eval_1.fa.temp/rsem_eval_1.fa 0 0 0 Trinity.fasta

rsem-synthesis-reference-transcripts : No such file or directory!

Please check if you have compiled the associated codes by typing related "make" commands and/or made related executables ready to use.

I am not sure what to make of this error message.Any help on what the next steps should be would be much appreciated. 

Thanks!!

Nikelle 

rsem rna-seq detonate rsem-eval • 1.8k views
ADD COMMENTlink written 4.3 years ago by nikelle.petrillo100

Did you add the folder with all rsem related executables to the PATH?

ADD REPLYlink written 4.3 years ago by h.mon29k
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