Commit 5b5ccab8 authored by Rayan Chikhi's avatar Rayan Chikhi

Update Readme.md

parent 7a097515
......@@ -6,22 +6,22 @@ Assembled with canu 1.7.1 with parameter `genomeSize=5m --corOutCoverage=20`.
# File description
- assembly_contig.fasta: sequence of contig generate by canu
- assembly_contig.gfa: contig graph generate by canu
- reads_raw.fasta: read generated by LongISLND
- reads_corrected.fasta: read corrected by canu
- assembly_contig.fasta: contigs , generated by canu
- assembly_contig.gfa: contig graph, generated by canu
- reads_raw.fasta: simulated reads generated by LongISLND
- reads_corrected.fasta: reads corrected by canu
# How to run knot
We assume knot is avaible in your path and you are in demo folder.
We assume knot is available in your path and you are in demo folder.
On raw read:
On raw reads:
```
knot -r reads_raw.fasta -c assembly_contig.fasta -g assembly_graph.gfa -o raw
```
On corrected read:
On corrected reads:
```
knot -C reads_raw.fasta -c assembly_contig.fasta -g assembly_graph.gfa -o corrected
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment