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Calculation of mapping statistics, sorting and indexing of the read alignment files were performed using SAMtools (version 0.2.0) [ 74].
Calculation of mapping statistics, sorting and indexing of the read alignment files were performed using SAMtools [ 76].
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However, the SDR in LG2 may not affect the calculation of map distance according to theoretical estimates in case only one genetic factor affecting SD is present in a SDR [13] [15].
The Kosambi mapping function was used for the calculation of map distances.
Calculation of MAP, eGFR, and proteinuria is detailed in the text.
For details of the mapping procedure and the calculation of map positions see the Methods section and [ 9].
Multipoint programs RHMINBRK (calculation of map order with minimal number of obligatory chromosomal breaks) and RHMAXLIK (calculation of map order with maximized likelihood given the retention pattern) were applied for map construction under the equal retention model.
Most of these markers have no effect on the calculation of map distance, except SBN1614, SBN3567 and GSSR074.
Kosambi map distances were calculated using a simplified version of the perl script described in the section entitled "Calculation of map distances" below (Additional File 15) [ 54].
Very thin 30-500 nm) sections are essential for obtaining good maps of elements and energy-loss spectra because of the multiple scattering events that hamper the calculation of maps and good spectra acquisition.
The observed recombination frequencies were used for the calculation of map distances using the onemap package of R [ 71] with both the Kosambi and the Haldane mapping functions [ 72, 73].
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