COVID-19: Assembly


StepAnnotation
Step 1: Input dataset
select at runtime
Step 2: Input dataset
select at runtime
Step 3: Input dataset
select at runtime
Step 4: Create assemblies with Unicycler
Paired
Output dataset 'output' from step 1
Output dataset 'output' from step 2
Output dataset 'output' from step 3
Normal (moderate contig size and misassembly rate)
10000
1
Not available.
SPAdes options:
False
0.2
0.95
Empty.
10
0.25
False
Rotation options:
False
select at runtime
90.0
95.0
Pilon options:
False
1000
Graph cleaning options:
1000
1000
Long read alignment parameters:
select at runtime
3,-6,-5,-2
Not available.
Use default job resource parameters
Step 5: SPAdes
False
False
True
False
21,33,55,77
Off
False
Library
Libraries 1
Paired-end / Single reads
-> <- (fr)
Files
Files 1
Separate input files
Output dataset 'output' from step 1
Output dataset 'output' from step 2
select at runtime
Output dataset 'output' from step 3
select at runtime
select at runtime
select at runtime
True
True
Use default job resource parameters
Step 6: Bandage Info
Output dataset 'assembly_graph' from step 4
False
Step 7: Bandage Image
Output dataset 'assembly_graph' from step 4
1000
Not available.
False
False
.png
Step 8: Bandage Image
Output dataset 'contig_graph' from step 5
1000
Not available.
False
False
.png
Step 9: Bandage Info
Output dataset 'contig_graph' from step 5
False