Daniel Brami
Daniel Brami
Hi, This seems to be common theme: when will the new batch of Kraken tools converge. As per the post below: http://ccb.jhu.edu/software/choosing-a-metagenomics-classifier/ What's the progress of integrating KrakenUniq into Kraken2,...
### Description of feature How can I add a step to compress BAM to CRAM once the analysis is complete, then delete BAMs? The alternative would be to output CRAM...
Hello, This isn't a real issue. Just wondering what kind of continued improvements or new releases to expect (beyond support), given most of the new commits to this project stopped...
Hi, there are errors in every script and I have to skip to the last section if I want to go through it.. But the jupyter notebook works though. -...
Hi, trim_quality chokes on ab1 /abi files: here is my trim_quality.error: Traceback (most recent call last): File "/sgi/asmopt/python27/lib/python2.7/site-packages/crumbs/utils/bin_utils.py", line 61, in main return(funct()) File "/sgi/asmopt/python27/bin/trim_quality", line 86, in run args['out_format'],...
Hi, I'm not seeing any shap outputs when using the following: ``` # Initialize AutoML in Explain Mode automl = AutoML(mode="Explain", explain_level=2, ml_task='multiclass_classification') automl.fit(X, y) ``` This in spte of...
Hi, I've seen open issue #174 Can't use cyvcf2 against AWS S3, and I'm assuming the intent is to download VCFs locally to be open by cyvcf2. My question is...
Hi, I'm not getting any response on the [BioStars VG](https://www.biostars.org/p/9585526/#9585526) forum so figured i'd post here: I'm aligning my reads to the reference graph using the same process as found...
Hi Kevin, I started to try playing with the script but I'm running into a few speed bumps that I thought I would share in different tickets): - does not...
Hi Kevin, Here's the output from running script on a .VCF file: `(dnafinger) (base) ➜ VCFs ls HG01082.hard-filtered.vcf (dnafinger) (base) ➜ VCFs ezancestry predict ./ no SNPs loaded... 2022-06-15 08:44:45.149...