From 899d5deec2e6913b3e795dc85ebcc7a04bbff8e0 Mon Sep 17 00:00:00 2001 From: Avsecz Date: Sun, 2 Dec 2018 22:01:58 +0100 Subject: [PATCH] remove non-ascii characters --- CpGenie/model-template.yaml | 2 +- DeepSEA/predict/model.yaml | 2 +- DeepSEA/variantEffects/model.yaml | 4 ++-- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/CpGenie/model-template.yaml b/CpGenie/model-template.yaml index 47599fa72..fbbaf1fc7 100644 --- a/CpGenie/model-template.yaml +++ b/CpGenie/model-template.yaml @@ -17,7 +17,7 @@ info: github: krrome name: CpGenie version: 0.1 - trained_on: "Samples from Chromosome 1–9 and 14–22 were used for training, 12–13 were used for hyper-parameter tuning and model selection, and the rest of the data were held-out for testing. In the analysis of variant-prediction, only meQTL and allele-specific methylation data from the held-out chromosome 10 and 11 were used. The 50 RRBS datasets of immortal cell lines, including GM12878, and the WGBS dataset of GM12878 were downloaded from ENCODE website (https://www.encodeproject.org/)." + trained_on: "Samples from Chromosome 1-9 and 14-22 were used for training, 12-13 were used for hyper-parameter tuning and model selection, and the rest of the data were held-out for testing. In the analysis of variant-prediction, only meQTL and allele-specific methylation data from the held-out chromosome 10 and 11 were used. The 50 RRBS datasets of immortal cell lines, including GM12878, and the WGBS dataset of GM12878 were downloaded from ENCODE website (https://www.encodeproject.org/)." doc: > Abstract: DNA methylation plays a crucial role in the establishment of tissue-specific diff --git a/DeepSEA/predict/model.yaml b/DeepSEA/predict/model.yaml index 221dea227..3b4296f26 100644 --- a/DeepSEA/predict/model.yaml +++ b/DeepSEA/predict/model.yaml @@ -31,7 +31,7 @@ info: size and 4 nucleotides. Per sample, 919 probabilities of a specific epigentic feature will be predicted. cite_as: https://doi.org/10.1038/nmeth.3547 - trained_on: "Chromosome 8 and 9 were excluded from training, and the rest of the autosomes were used for training and validation. 4,000 samples on chromosome 7 spanning the genomic coordinates 30,508,751–35,296,850 were used as the validation set. Data were ENCODE and Roadmap Epigenomics chromatin profiles https://www.nature.com/articles/nmeth.3547#methods" + trained_on: "Chromosome 8 and 9 were excluded from training, and the rest of the autosomes were used for training and validation. 4,000 samples on chromosome 7 spanning the genomic coordinates 30,508,751-35,296,850 were used as the validation set. Data were ENCODE and Roadmap Epigenomics chromatin profiles https://www.nature.com/articles/nmeth.3547#methods" training_procedure: https://www.nature.com/articles/nmeth.3547#methods tags: - Histone modification diff --git a/DeepSEA/variantEffects/model.yaml b/DeepSEA/variantEffects/model.yaml index a061d10a1..c981ef338 100644 --- a/DeepSEA/variantEffects/model.yaml +++ b/DeepSEA/variantEffects/model.yaml @@ -29,7 +29,7 @@ info: size and 4 nucleotides. Per sample, 919 probabilities of a specific epigentic feature will be predicted. cite_as: https://doi.org/10.1038/nmeth.3547 - trained_on: "Chromosome 8 and 9 were excluded from training, and the rest of the autosomes were used for training and validation. 4,000 samples on chromosome 7 spanning the genomic coordinates 30,508,751–35,296,850 were used as the validation set. Data were ENCODE and Roadmap Epigenomics chromatin profiles https://www.nature.com/articles/nmeth.3547#methods" + trained_on: "Chromosome 8 and 9 were excluded from training, and the rest of the autosomes were used for training and validation. 4,000 samples on chromosome 7 spanning the genomic coordinates 30,508,751-35,296,850 were used as the validation set. Data were ENCODE and Roadmap Epigenomics chromatin profiles https://www.nature.com/articles/nmeth.3547#methods" training_procedure: https://www.nature.com/articles/nmeth.3547#methods tags: - Histone modification @@ -75,4 +75,4 @@ test: expect: url: https://s3.eu-central-1.amazonaws.com/kipoi-models/predictions/14f9bf4b49e21c7b31e8f6d6b9fc69ed88e25f43/DeepSEA/variantEffects/predictions.h5 md5: 365924f5d7f3372ef57721f2742192f9 - precision_decimal: 6 \ No newline at end of file + precision_decimal: 6