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Commit 300ad940 authored by Tim O'Donnell's avatar Tim O'Donnell
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fix

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# Combined training data
This download contains the data used to train the production class1 MHCflurry models. This data is derived from a recent [IEDB](http://www.iedb.org/home_v3.php) export as well as the data from [Kim 2014](http://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-15-241).
This download contains the data used to train the production class1 MHCflurry models. This data is derived from a recent [IEDB](http://www.iedb.org/home_v3.php) export as well as the data from [Kim 2014](http://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-15-241), as well as a number of other sources.
To generate this download run:
```
pip install -r requirements.txt # for the first time you generate this download
./GENERATE.sh
```
\ No newline at end of file
```
......@@ -229,7 +229,7 @@ def handle_pmid_26992070(*filenames):
for num in ["1", "2"]:
allele_info[
"HLA-%s %s" % (gene, num)
] = "HLA-" + gene + allele_info["HLA-%s %s" % (gene, num)]
] = "HLA-" + gene + "*" + allele_info["HLA-%s %s" % (gene, num)]
cell_line_to_allele = allele_info.apply(" ".join, axis=1)
sheets = {}
......@@ -585,7 +585,7 @@ def handle_pmid_31495665(filename):
"MAPTAC_DRB3*01:01_dm-": "mixed",
}
df = pandas.read_excel(filename, sheetname="DataS1B")
df = pandas.read_excel(filename, sheet_name="DataS1B")
results = []
for sample_id in df.columns:
if hla_type[sample_id] is None:
......
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