Definitions:

ORF: Open reading frame.

Canonical ORF: ORF annotated in UniProt or RefSeq databases.

Noncanonical ORF (ncORF): ORF not annotated in UniProt or RefSeq databases.

UMP (Uniquely Mapped Peptide): Peptide uniquely mapped to a single ORF or protein.

Peptide evidence: Feature supported by any mapped peptide.

Transcript-specific or gene-specific peptide: Peptide uniquely mapped to a specific transcript or gene.

Peptide-confirmed: Feature distinguished by transcript-specific or gene-specific peptides.

Summary of peptides, transcripts and ORFs

Total Peptides: 60

UMPs: 32

Transcripts with peptide evidence: 11

Peptide-confirmed transcripts: 6

Genes with peptide evidence: 5

Peptide-confirmed genes: 5

Proteins/ORFs with peptide evidence: 12

Proteins/ORFs with UMPs: 6

Summary of peptides mapped to contaminants, decoys or that weren’t mapped to genomic loci

Total peptides mapped to decoys: 0

Total peptides mapped to contaminants: 0

Total other peptides that weren’t mapped (likely belong to ORFs with multiple genomic locations): 0

Peptide-level data
Uniquely mapped peptides 32
Transcript-specific peptides 9
Gene-specific peptides 60
Peptides spanning splice junctions 15
Peptides mapped to multiple ORFs from multiple genes 0

Transcript-level data
Annotated (known) transcripts with peptide evidence 11
Unannotated (novel) transcripts with peptide evidence 0
Annotated transcripts encoding ORFs with UMPs 8
Unannotated transcripts encoding ORFs with UMPs 0
Peptide-confirmed annotated transcripts 6
Peptide-confirmed unannotated transcripts 0
Peptide-confirmed unannotated transcripts encoding canonical ORFs with UMPs 0
Peptide-confirmed unannotated transcripts encoding noncanonical ORFs with UMPs 0 
## ### Variant protein isoform data
Variant proteins with UMPs 0
Canonical variant proteins with UMPs 0
Noncanonical variant proteins with UMPs 0
Variant UMPs 0
Canonical variant protein derived UMPs 0
Noncanonical variant protein derived UMPs 0

Protein/ORF-level data
Canonical ORFs with peptide evidence 9
Noncanonical ORFs with peptide evidence 3
Canonical ORFs with UMPs 3
Noncanonical ORF with UMPs 3

Figures

Peptides by mapping status (Total peptides: 60)

Number of UMPs per ORF (shown for >10 ORFs)

## `summarise()` has grouped output by 'orf_type'. You can override using the `.groups` argument.

Peptides by number of exons spanned

Noncanonical ORFs with UMPs by localisation

Noncanonical ORFs with UMPs by simplified transcript biotype

Lengths of annotated and unannotated ORFs (with UMPs)