Clodius aggregate with new assembly
- Dominant language
- Python
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Description
Hi all,
I'm trying to use `clodius aggregate bedgraph` to generate TADs.
```bash
sudo docker exec gibcus-chicken2.0-higlass clodius aggregate bedgraph \
> /tmp/WT-G2-S4-R5.insulation.boundaries.bed \
> --output-file /tmp/WT-G2-S4-R5.insulation.boundaries.bed2ddb \
> --chromosome-col 1 \
> --from-pos-col 2 \
> --to-pos-col 3 \
> --value-col 6 \
> --assembly galGal6 \
> --nan-value NA \
> --has-header
```
Clodius does not have the galGal6 assembly, so I get this error:
```bash
Error: Invalid value for "--assembly" / "-a": invalid choice: galGal6. (choose from b37, mm9, GCF_000005845.2_ASM584v2_genomic, test, dm3, dm6, grch37, GCA_000001215.4_Release_6_plus_ISO1_MT_genomic, GCA_000001405.15_GRCh38_genomic, grch37-lite, test3chroms, mm10, danRer10, hg19, hg38)
```
I recently added galGal6 to negspy, but it seems that Clodius has a different source for its assemblies. Is there a way (for me) to add galGal6 to Clodius?
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