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ABySS File Formats
Sequence overlap graph in ABySS adj (adjacency) format
NCBI GenBank Accessioned Golden Path
Tabular data in Comma-separated values format
Distance estimates in ABySS dist format (similar to adj format)
Distance estimates in Graphviz dot format
Sequence overlap graph in Graphviz dot format
Contig and scaffold sequences in FASTA format
A histogram of the fragment size distribution in tab-separated values format, without a header
| Column | Description |
|---|---|
| 1 | Fragment size |
| 2 | Count |
- Positive fragment sizes are oriented forward-reverse (FR).
- Negative fragment sizes are oriented reverse-forward (RF).
Reports in Markdown format
Scaffolds in ABySS PATH format
If the line is composed of a single identifier, the specified contig is removed from the assembly. Otherwise, the first column of the line is the ID of the new scaffold, and the remainder of the line is a sequence of contig IDs and their orientation.
Reads aligned to contig/scaffold sequences in Sequence Alignment/Map format
Statistics of contig/scaffold contiguity in TSV, CSV and Markdown formats
Tabular data in tab-separated values format, including a one-line header