Workflow: EMG pipeline v3.0 (paired end version)

Fetched 2024-07-19 10:56:30 GMT
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Inputs

ID Type Title Doc
5S_model File [HMMER format]
16S_model File [HMMER format]
23S_model File [HMMER format]
tRNA_model File [HMMER format]
forward_reads File [FASTQ]
reverse_reads File [FASTQ]
go_summary_config File
fraggenescan_model https://w3id.org/cwl/view/git/ca6ca613f0d3728d9589a6ca6293e66dfde87bfb/tools/FragGeneScan-model.yaml#model

Steps

ID Runs Label Doc
overlap_reads
../tools/seqprep.cwl (CommandLineTool)
unified_processing
emg-pipeline-v3.cwl (Workflow)
EMG pipeline v3.0 (single end version)
combine_overlaped_and_unmerged_reads
../tools/seqprep-merge.cwl (CommandLineTool)

Outputs

ID Type Label Doc
tree File
biom_json File
predicted_CDS File
otu_table_summary File
processed_sequences File
functional_annotations File
Permalink: https://w3id.org/cwl/view/git/ca6ca613f0d3728d9589a6ca6293e66dfde87bfb/workflows/emg-pipeline-v3-paired.cwl