plubbe

BEAUTi adding 1s to taxon IDs (again)

4

Hey team- I've followed the previous threads (#478) on BEAUti adding 1s to taxon IDs, and seen the solution to change the .xml file as so: replace taxon id="668666_Onth_long_" spec="Taxon”/...

Atomic time interval parameters

3

Hi team - Have been trying out some different parameters for the -N, -t, and -p flags (based on published materials), but I'm having a hard time interpreting the differences...

Sudden increases in Ne

3

Hello again team. I am generating PSMC plots for multiple species, and I keep seeing, across most of them, sudden increases in Ne that shoot into >1e06. Occasionally the plots...

bcftools call -T logical complement issue

1

Hiya - I've been trying to use mpileup and call with a file of regions to exclude from the call command, like so: `bcftools mpileup -Ou -f reference.fa input.bam |...