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Update assembly.rst
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nkleinbo committed Sep 20, 2019
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4 changes: 2 additions & 2 deletions docs/assembly_qc/assembly.rst
Expand Up @@ -120,14 +120,14 @@ After that is done, inspect the results. We can get a quick view on the number o

grep '>' ~/workdir/assembly_small/assembly.contigs.fasta

If there is time, we start the actual assembly with all data now::
**If there is time**, we start the actual assembly with all data now::

Group 1:
canu -d ~/workdir/assembly -p assembly "genomeSize=4.3M" useGrid=false -nanopore-raw ~/workdir/basecall/basecall_trimmed.fastq.gz
Group 2:
canu -d ~/workdir/assembly -p assembly "genomeSize=6.8M" useGrid=false -nanopore-raw ~/workdir/basecall/basecall_trimmed.fastq.gz

Copy the precomputed assembly with the complete dataset into your working directory::
**Otherwise**, copy the precomputed assembly with the complete dataset into your working directory::

cp -r ~/workdir/results/assembly/ ~/workdir/

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