Run: %%RUN_NAME%% · Date: %%RUN_DATE%% · polap %%POLAP_VERSION%%
Command: %%POLAP_CMDLINE%%
annotate-read-pt/pt1/01-contig/l.txt
annotate-read-pt/pt1/01-contig/l.subsample.txt
graph_final.fasta
mt*/30-contigger/graph_final.gfa
Contig annotation depth
| File | Description |
|---|---|
| contig-annotation-depth-table.txt | Depth and MT/PT counts per contig |
| mt.gene.count | MT gene hits across pt contigs (if present) |
| depth scatter (pdf) | Coverage scatter diagnostic |
Contig annotation depth
| File | Description |
|---|---|
| contig-annotation-depth-table.txt | Depth and MT/PT counts per contig |
| mt.gene.count | MT gene hits across pt contigs (if present) |
Circular path summary (if present in ptdna/ptdna)
Contig annotation depth
| File | Description |
|---|---|
| contig-annotation-depth-table.txt | Depth and MT/PT counts per contig |
| mt.gene.count | MT gene hits per contig (if present) |
Next seeds: mtseed/mt0/mt.contig.name-mt1 (forward
seed list for mt1)
Contig annotation depth
| File | Description |
|---|---|
| contig-annotation-depth-table.txt | Depth and MT/PT counts per contig |
| mt.gene.count | MT gene hits per contig (if present) |
Next seeds: mtseed/mt1/mt.contig.name-mt2 (forward
seed list for mt2)
Contig annotation depth
| File | Description |
|---|---|
| contig-annotation-depth-table.txt | Depth and MT/PT counts per contig |
| mt.gene.count | MT gene hits per contig (if present) |
Seeds forward (if any): mtseed/mt2/mt.contig.name-mt3
If present, you can inspect:
overlapness.tsv,
overlapness_strict.tsv, and QC plots under mtseed/03-allvsall/04-qc.
graph_final.gfa,
review circular paths in ptdna/ptdna/, adjust repeat
resolution if needed.
mtN/mt.contig.name-mt(N+1) to seed the next round;
confirm contigs with high MT gene counts and reasonable depth.
Generated by polap readassemble. Paths are relative to report location.