Commit 94490100 authored by peguerin's avatar peguerin
Browse files

readme update

parent 4beaff4b
......@@ -77,6 +77,7 @@ Platanus is a novel de novo sequence assembler that can reconstruct genomic sequ
### 1. Contig assembling
```
platanus assemble -tmp temp/ -m 256 -t 64 -o serran_assemble -f pe_dir/*.fastq 2> assemble.log
```
......@@ -93,7 +94,6 @@ platanus gap_close -t 64 -tmp temp/ -o serran_hpc_gapclose -c out_scaffold.fa -
```
## Supernova
Supernova should be run using 38-56x coverage of the genome.
......@@ -134,6 +134,8 @@ see [arcs_pipeline.sh](arcs/pipeline.sh) for details.
# Results
## Summary statistics of genome assemblies
_CSV file of this table is available [here](results/resultats_assemblage_genome-1.csv)_
Species | Genome assembler | Computing platform | Library | # of contigs | Contig N50 | Total size(Mbp) | # of scaffolds | Scaffold N50 | Coverage
--------------------|--------------------|----------------------|--------------------------------------------------------------------------|----------------|--------------|--------------------|------------------|----------------|----------
......
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