Stijn van Dongen
Stijn van Dongen
- How big is your actual data? - I suggest to follow some of my suggestions for a subset of your data, for example the `mcx query` command. - I...
Hello, I'm closing this issue. Feel free to continue the conversation, in which case I will convert it from an issue to a discussion.
Hello. What do the first ten lines of `xxx.abc` look like? Can you show the output of ``` head -n 10 xxx.abc ``` please?
The main thing still is to understand the data. The orthofinder code does some substantial filtering, by the looks of it, and the code is aware of the species being...
At the MGV page they give this: ``` Filter edges and prepare MCL input python filter_aai.py --in_aai aai.tsv --min_percent_shared 20 --min_num_shared 16 --min_aai 40 --out_tsv genus_edges.tsv python filter_aai.py --in_aai aai.tsv...
You're also very patient :-) I had a quick look at the WaterFallMethod (but stopped after that). I expect a lot of differences in how things are computed between mcxload...
**(a)** If mcxload does not work for this data (memory issues), then mcl will also not work (even bigger memory issues) **(b)** The very first data you showed implied a...