M.tuberculosis dataset for drug resistant

The SNP and gene datasets of M. Tuberculosis for drug resistance prediction. Here is a brief description of each file:

• AllLabels.csv contains the susceptibility/resistance status (susceptibility:0 and resistance:1) for each sample isolate to 12 different drugs.
• SNPList.csv contains the list of all loci on the MTB genome where a mutation was detected using the variant calling tools, based on the reference genome provided here.
• SNP_data_part*.zip contains csv files with the binary SNPs. The csv files are concatenated using loading_data package (refer to this repo).
• gene_data.csv.zip contians a csv file that summarizes the SNPs based on the gene that they fall into to form a matrix that contains a single feature for each gene of each sample isolate.
• iso_list.csv a list of all isolates IDs used in the training data.
• sparsetableFeb27.npz The binary SNP file in npz format for ease of use.

For understanding how to load and use this data please visit the LRCN-drug-resistance repository, especially the loading_data section.

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Citation

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https://dl.acm.org/doi/abs/10.1145/3459930.3469534

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