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Searched refs:setSnps (Results 1 – 6 of 6) sorted by relevance

/dports/biology/gemma/GEMMA-0.98.3/src/
H A Dgemma_io.h41 bool ReadFile_snps(const string file_snps, set<string> &setSnps);
42 bool ReadFile_snps_header(const string &file_snps, set<string> &setSnps);
62 bool ReadFile_geno(const string &file_geno, const set<string> &setSnps,
70 bool ReadFile_bed(const string &file_bed, const set<string> &setSnps,
H A Dvc.h59 set<string> setSnps; variable
H A Dparam.cpp149 if (ReadFile_snps(file_snps, setSnps) == false) { in ReadFiles()
153 setSnps.clear(); in ReadFiles()
282 if (ReadFile_bed(file_str, setSnps, W1, indicator_idv, indicator_snp, in ReadFiles()
316 if (ReadFile_geno(file_geno, setSnps, W2, indicator_idv, indicator_snp, in ReadFiles()
370 if (ReadFile_bed(file_str, setSnps, W3, indicator_idv, indicator_snp, in ReadFiles()
422 if (ReadFile_geno(file_name, setSnps, W4, indicator_idv, indicator_snp, in ReadFiles()
1126 if (setSnps.size()) in CheckData()
1127 cout << "## number of considered SNPS = " << setw(8) << setSnps.size() << endl; in CheckData()
H A Dgemma_io.cpp152 bool ReadFile_snps(const string file_snps, set<string> &setSnps) { in ReadFile_snps() argument
154 setSnps.clear(); in ReadFile_snps()
168 setSnps.insert(ch_ptr); in ReadFile_snps()
180 bool ReadFile_snps_header(const string &file_snps, set<string> &setSnps) { in ReadFile_snps_header() argument
182 setSnps.clear(); in ReadFile_snps_header()
228 setSnps.insert(rs); in ReadFile_snps_header()
635 bool ReadFile_geno(const string &file_geno, const set<string> &setSnps, in ReadFile_geno() argument
704 if (setSnps.size() != 0 && setSnps.count(rs) == 0) { in ReadFile_geno()
859 bool ReadFile_bed(const string &file_bed, const set<string> &setSnps, in ReadFile_bed() argument
925 if (setSnps.size() != 0 && setSnps.count(snpInfo[t].rs_number) == 0) { in ReadFile_bed()
H A Dparam.h325 set<string> setSnps; // Set of snps for analysis (-snps). variable
H A Dvc.cpp66 setSnps = cPar.setSnps; in CopyFromParam()
638 void ReadFile_cor(const string &file_cor, const set<string> &setSnps, in ReadFile_cor() argument
756 if (setSnps.size() == 0 || setSnps.count(rs) != 0) { in ReadFile_cor()