search

smangul1 / ec

This project includes simulated and 'golden standard' datasets, software and scripts that we used to benchmark error correction tools
https://smangul1.github.io/ec/
1 stars 3 forks source link

updates #17

Closed smangul1 closed 7 years ago

smangul1 commented 7 years ago

Hi PARTH,

Any updates here?

Please update the table here

https://github.com/smangul1/ec/wiki/Running-tools

with the tools and datasets you will run just you put your name and "todo" For now take 2 or 3

Serghei

parthingle commented 7 years ago

It seems like I don't have permission to run coral that I tried to run using this script:

  L1=(64 65 66 67 68 69 70 71 72 73)

   for i in `seq 0 9`; do
           /u/home/d/douglasy/coral-1.4.1/coral -fq /u/project/zarlab/ngcrawfo/igor/VIRAL_CORRECTION/tools/data/datasets_no_barcodes_no_index/SRR15439${L1[$i]}.fastq -o SRR155439$L1[$i]}_coral_output.fastq -p 1 -k 18
   done

This shell file run.sh is in my scratch directory /u/home/p/parthing/scratch/T2_Coral/

parthingle commented 7 years ago

Hey,, sorry I think I accidentally closed this issue