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Functional Annotation (TransDecoder + Pfam + SwissProt)

Functional: C57 K1-50pM (individual)

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Type
Custom
Status
succeeded
Engine
custom
Duration
0.7 h
Source Data
Study Strain-specific cortex gene expression and isoform usage
Pipeline
PacBio CCS (Subreads → HiFi)
Run #76
succeeded
IsoSeq Clustering (Refine + Cluster)
Run #81
succeeded 1 sources
IsoSeq Annotation (Map + Collapse + SQANTI3)
Run #91
succeeded 1 sources
Functional Annotation (TransDecoder + Pfam + SwissProt)
Run #101 (this run)
succeeded 1 sources
Combined From

Software Tools

ToolVersionURL
TransDecoder - https://github.com/TransDecoder/TransDecoder
HMMER (hmmscan) - http://hmmer.org/
diamond - https://github.com/bbuchfink/diamond
Singularity - https://sylabs.io/singularity/

Results Summary

Transcripts
9,396
Pfam Coverage
85.9%
SwissProt Coverage
90.9%
Domain Variant Genes
185

Peptide Length Distribution

8,834 ORFs | Median: 420 aa | Mean: 486 aa | Max: 2,505 aa

Evidence Tier Distribution

Frame Impact Classification

Top Pfam Domains

ORF Type Distribution

Output Files

blastp.tsv HPC 1.4 MB gene_functional_summary.tsv HPC 365.8 KB isoform_annotations.tsv HPC 1.9 MB mouse_c57_k1_50pm_corrected.fasta.transdecoder.bed HPC 1 MB mouse_c57_k1_50pm_corrected.fasta.transdecoder.cds HPC 13.4 MB mouse_c57_k1_50pm_corrected.fasta.transdecoder.gff3 HPC 5 MB mouse_c57_k1_50pm_corrected.fasta.transdecoder.pep HPC 5.1 MB pfam.domtblout HPC 5.4 MB rep_besthit.tsv HPC 1.2 MB rep_pfam.tsv HPC 223.2 KB results_summary.json HPC 2.4 KB

Provenance

Execution IsoSeq Functional Annotation: TransDecoder + Pfam + SwissProt (mouse_c57_k1_50pm)
Started 2026-03-06T09:42:26+00:00
Completed 2026-03-06T00:25:30+00:00
RO-Crate 1.1 Workflow RO-Crate 1.0 FAIR
This analysis is packaged as a Research Object Crate with machine-readable provenance and FAIR metadata.

RO-Crate Metadata (JSON-LD)

Show/hide raw JSON-LD 
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