Open LuisGFdez opened 1 week ago
Hi, I'm using SINGER to infer the ARG from some simulations. Below is the command line I'm using to infer the tree:
singer_software/singer_master -Ne 1000 -m 1e-7 recomb_map recom_ratemap.csv -vcf example_sim -output infer_vcf -start 0 -end 20010
And this is the command I'm using to convert the output to tskit format:
singer_software/convert_to_tskit -input infer_vcf -output trees_tskit -start 0 -end 20010
However, I keep encountering this error regardless of the step size parameter I specify:
FileNotFoundError: infer_vcf_nodes_100.txt not found.
Why is it looking for the file infer_vcf_nodes_100.txt when I only have 99 files?
Additionally, is there a specific format required for the recombination rate map? It seems the software isn't using the file I provided.
Any insight is appreciated. recom_ratemap.csv
example_sim.zip
Hi, I'm using SINGER to infer the ARG from some simulations. Below is the command line I'm using to infer the tree:
And this is the command I'm using to convert the output to tskit format:
However, I keep encountering this error regardless of the step size parameter I specify:
Why is it looking for the file infer_vcf_nodes_100.txt when I only have 99 files?
Additionally, is there a specific format required for the recombination rate map? It seems the software isn't using the file I provided.
Any insight is appreciated. recom_ratemap.csv
example_sim.zip