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The [gradle docs on incremental builds](https://docs.gradle.org/current/userguide/incremental_build.html) say
> don’t register properties as inputs if they don’t affect the output
As the pitest hi…
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**Describe the bug**
I'm trying to generate a simulated dataset by using some different references and a configuration file like the one described in the examples of the README, but they both fail wi…
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After data analysis, R plots should be automatically generated for mutation frequency distribution plots, and other analysis statistics. Currently this must all be done manually by the user.
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**Is your feature request related to a problem? Please describe.**
Safe mode removes many valid mutations as a side effect. This is a loss of information in itself; also, with the evolution of the C#…
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Add more columns to data_clinical.txt, using http://oncotree.mskcc.org/cdd/api/ to standardize column names if possible.
- [ ] `MOUSE_CONTAMINATION` - For batches with at least 1 PDX sample, report…
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The creation of the ddt_data.js file will have an amount of duplicate entries of mutations according to however many file_names/sample_names are included in the lineage analysis process.
For example,…
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https://shixiangwang.github.io/home/cn/post/2020-06-07-mutational-signature-analysis-with-sigminer/
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hello
running the following command resulted in the following error:
~/RIMA_pipeline$ snakemake -s RIMA.snakefile -np
Building DAG of jobs...
MissingInputException in line 96 of modules/mutati…
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In case a buggy application that uses FDB deletes or changes the DB, the application owner may want to know which operation performs the misoperation and when.
A forensic tool that shows all mutat…
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In the paper it is suggested to use subcloneseeker to build yalm files, however the output of this tool is a tree of subclones, but for each subclone it is not specified what mutations/clusters are pr…