This is the application specification for service with identifier GenomeAssembly2.
The backend script implementing the application is App-GenomeAssembly2.pl.
The raw JSON file for this specification is GenomeAssembly2.json.
This service performs the following task: Assemble reads into a set of contigs
It takes the following parameters:
| id | label | type | required | default value |
|---|---|---|---|---|
| paired_end_libs | group | |||
| single_end_libs | group | |||
| srr_ids | SRR ID | string | ||
| recipe | Assembly recipe | enum | auto | |
| racon_iter | Racon iterations | int | 2 | |
| pilon_iter | Pilon iterations | int | 2 | |
| trim | trim_reads | boolean | 0 | |
| normalize | normalize_reads | boolean | 0 | |
| min_contig_len | Minimal output contig length | int | 300 | |
| min_contig_cov | Minimal output contig coverage | float | 5 | |
| genome_size | Genome Size | string | 5M | |
| output_path | Output Folder | folder | ✔️ | |
| output_file | File Basename | wsid | ✔️ | |
| debug | Debug level | int | 0 |