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| author | zsloan | 2020-03-27 19:29:37 -0500 |
|---|---|---|
| committer | zsloan | 2020-03-27 19:29:37 -0500 |
| commit | aa628fb118a92e5df9818619e25dcc5f96f7a889 (patch) | |
| tree | 14feef2921db0a3e17ab70f11fa25aad38a3c7e8 | |
| parent | 0e240cbfc6034b65b42c2d21f59ae2663dd2f6ec (diff) | |
| download | genenetwork2-aa628fb118a92e5df9818619e25dcc5f96f7a889.tar.gz | |
Temporary fix for issue with RData rqtl results having shifted postiions
| -rw-r--r-- | wqflask/wqflask/marker_regression/display_mapping_results.py | 16 |
1 files changed, 13 insertions, 3 deletions
diff --git a/wqflask/wqflask/marker_regression/display_mapping_results.py b/wqflask/wqflask/marker_regression/display_mapping_results.py index cf4508dd..302a4ff9 100644 --- a/wqflask/wqflask/marker_regression/display_mapping_results.py +++ b/wqflask/wqflask/marker_regression/display_mapping_results.py @@ -356,7 +356,11 @@ class DisplayMappingResults(object): self.ChrLengthCMList = [] for i, _chr in enumerate(self.genotype): - self.ChrLengthCMList.append(_chr[-1].cM - _chr[0].cM) + if self.mapping_method == "rqtl_geno" and self.genotype.filler == True: + self.ChrLengthCMList.append(_chr[-1].cM) + else: + self.ChrLengthCMList.append(_chr[-1].cM - _chr[0].cM) + self.ChrLengthCMSum = reduce(lambda x, y:x+y, self.ChrLengthCMList, 0.0) if self.plotScale == 'physic': @@ -1564,7 +1568,10 @@ class DisplayMappingResults(object): if self.selectedChr == -1: #ZS: If viewing full genome/all chromosomes for i, _chr in enumerate(self.genotype): thisChr = [] - Locus0CM = _chr[0].cM + if self.mapping_method == "rqtl_geno" and self.genotype.filler == True: + Locus0CM = 0 + else: + Locus0CM = _chr[0].cM nLoci = len(_chr) if nLoci <= 8: for _locus in _chr: @@ -1586,7 +1593,10 @@ class DisplayMappingResults(object): for i, _chr in enumerate(self.genotype): if _chr.name == self.ChrList[self.selectedChr][0]: thisChr = [] - Locus0CM = _chr[0].cM + if self.mapping_method == "rqtl_geno" and self.genotype.filler == True: + Locus0CM = 0 + else: + Locus0CM = _chr[0].cM for _locus in _chr: if _locus.name != ' - ': if _locus.cM != preLpos: |