EvanKomp
EvanKomp
I would like to keep the MSA for a number of predictions of different sequences. The sequences have a small number of homologous mutations (sometimes insertions or deletions), so should...
## Expected Behavior When min-seq-id is eg 50%, I would expect identity across clusters to be upper bounded by 50% ## Current Behavior Running blastp of sequences from a cluster...
Hey! My use case involves many many tasks of about ~3k * 3k query and subject sequences. These sets of sequences are very specifically curated. My current workflow uses a...
## __Use case conditions__: - tasks have large and variable run times - task executes 3rd party software, such that dask cannot migrate the execution state - workers have a...
Correct me if this already exists, I seem to see some merges from 2018 that may be related (#646 ) but see no examples. Essentially I have a stage that...
Mac os Sanoma 14.4.1, M2 chipset python 3.8.2
**Describe the bug** Error in complied code for 3.4.1 Darwin that I got from releases: `share/apbs/tools/manip/inputgen.py` **To Reproduce** Run the `setSmallest` method of Psize with any input. I don't know...
## Expected Behavior `colabfold_search` executes for 10 sequences on the hours timescale ## Current Behavior `colabfold_search` for 10 sequences essentially hangs on `expandaln` (very slow progress bar, it will take...
Hello - I am trying to rune a finetuning (potentially a useful model for the hub!) And ran into a couple of errors. 1. When testing out the log likelihood...
* PIGT version: * Python version: 3.9 * Operating System: centos ### Description Ran: ``` neuralplexer-inference --task=batched_structure_sampling \ --input-receptor $INPUT_SEQ \ --input-ligand $INPUT_SMILES \ --use-template --input-template $INPUT_PDB \ --out-path ./outs...