Child pages
  • Assemble Genomes with SPAdes Element
Skip to end of metadata
Go to start of metadata

Performes assembly of input short reads.

Parameters in GUI

ParameterDescriptionDefault value
Output directoryDirectory to save Spades output files. 
Dataset typeInput dataset type.Multi Cell
Running modeRunning mode.Error correction and assembly
K-mersk-mer sizes (-k).auto
Number of threadsNumber of threads (-t).16
Memory limit (Gb)Memory limit (-m).250

Parameters in Workflow File

Type: spades-id

ParameterParameter in the GUIType
output-dirOutput directory

string

dataset-typeDataset typestring
running-modeRunning modestring
k-merK-mersnumeric
threadsNumber of threadsnumeric
memlimitMemory limit (Gb)numeric

Input/Output Ports

The element has 1 input port:

Name in GUI: Spades data

Name in Workflow File: in-data

Slots:

Slot In GUISlot in Workflow FileType
URL of a file with right pair readsurlstring
URL of a file with readsurlstring

And 1 output port:

Name in GUI: SPAdes output data

Name in Workflow File: out-data

Slots:

Slot In GUISlot in Workflow FileType
ScaffoIds URLurlstring
  • No labels