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i have set the GENOME_DB environment at /home/xhh/document/superQ-master/genomes, but when i run the translocpeplines, the system still alarm like following:
Error: set environment variable GENOME_DB…
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Hi STAR team! I was trying to use Star for alignment. The output is going to use in rsem-calculate-expression.
When I used star alignment tool, it showed below messages.
【EXITING because of FATAL …
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Hello, everyone. I want to construct HBV genome index using STAR sofeware. But , the HBV annoation files (.gtf) have not exon information, so I have using the parameter "sjdbGTFfeatureExon" acoording …
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Hi, I'm running SOCfinder as below but I am getting an error that a file could not be found:
```
./SOC_mine.py -f /home/mydir/GENOME.2/GENOME.2.fasta -gff /home/mydir/GENOME.2/GENOME.2.gff -g /hom…
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I am trying to understand how STAR (v 2.7.6a ) calculates genome length. My genome consists of 219 contigs. I compute their total length to be 181467262 bp . STAR says this (from the Log.out fi…
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Hi Ivan,
I was wondering if there is a way to use MAPS for genomes that are not as well studied. I saw that the genomic features file requires GC content and mappability which is not readily avail…
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Hi @alexdobin ,
Can I use Star to map assembled transcripts to genome?
Best regards
Bin
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Hello!
First, thank you for the great job!
I have a problem with STAR running on cluster. The algortihm hangs forever at the 'loading genome' stage. The last string in log.out file is 'inserting e…
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I'm trying to run an assembly of a human genome with ~30x coverage with Nanopore reads. We're primarily running r5.24xlarge instances on Amazon, which have 96 cores and 768Gb of memory.
For the 48…