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Expander Agent ran into a problem since some of the nodes in RTX-KG2 are categorized with an abstract class. (See https://github.com/RTXteam/RTX/issues/2046 and https://github.com/RTXteam/RTX-KG2/issu…
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Hi Simone,
I tried to run CHISEL on my scWGS dataset (0.5x, ~100 cells, 5Mb bins) with matched blood bulk sample (15x). Somehow the RDR profile and copy number calls are much noisier compared to B…
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Hello!
Super nice tool! I am trying to apply it to my dataset but I am encountering the next error:
```
Processing sample: Brain_tumor
[1] "Starting Layer 1"
[1] "Done Layer 1"
[1] "Starting …
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Biomarker DB (aka OncoMX) source file now includes protein and glycan entries. See below to update existing human_protein_biomarkers_cancer.csv dataset (**change file name to human_protein_biomarkers.…
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https://mp.weixin.qq.com/s/a20PziCTQE6QDuHBnme3pw
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Hello!
Thanks for developing this great package! This is not an issue on the package but more like a question on the data so i apologize in advance.
I have a dataset with 3 patient samples from tu…
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I thought I would make an issue here so that we keep track of this.
our current approach is to use GCTA-cojo to identify independent signals, using LD from 10,000 UK Biobank samples as a reference …
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Before testing any data integration, we will need to identify the subset of samples from ScPCA that we want to use for testing. In ScPCA projects we have a variety of covariates that will need to be c…
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Roughly this is the idea: using a set of sequences (e.g. training set or generated set) we write first them in a temporary fasta file, using the obtained file (e.g. sequences.fa) call the kat hist fun…
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## Change term
* Submitter: @jegelewicz
* Justification (why is this change necessary?): The definition of MaterialSample is essentially the same as that for PreservedSpecimen. Members of the Arct…