QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations
QTL IciMapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci (QTL) in biparental populations. Eight functionalities are integrated in this software package: (1) BIN: binning of redundant markers; (2) MAP: construction of linkage...
| Autores principales: | , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
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Elsevier
2015
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| Acceso en línea: | https://hdl.handle.net/10568/170930 |
| _version_ | 1855527376070377472 |
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| author | Meng, Lei Li, Huihui Zhang, Luyan Wang, Jiankang |
| author_browse | Li, Huihui Meng, Lei Wang, Jiankang Zhang, Luyan |
| author_facet | Meng, Lei Li, Huihui Zhang, Luyan Wang, Jiankang |
| author_sort | Meng, Lei |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | QTL IciMapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci (QTL) in biparental populations. Eight functionalities are integrated in this software package: (1) BIN: binning of redundant markers; (2) MAP: construction of linkage maps in biparental populations; (3) CMP: consensus map construction from multiple linkage maps sharing common markers; (4) SDL: mapping of segregation distortion loci; (5) BIP: mapping of additive, dominant, and digenic epistasis genes; (6) MET: QTL-by-environment interaction analysis; (7) CSL: mapping of additive and digenic epistasis genes with chromosome segment substitution lines; and (8) NAM: QTL mapping in NAM populations. Input files can be arranged in plain text, MS Excel 2003, or MS Excel 2007 formats. Output files have the same prefix name as the input but with different extensions. As examples, there are two output files in BIN, one for summarizing the identified bin groups and deleted markers in each bin, and the other for using the MAP functionality. Eight output files are generated by MAP, including summary of the completed linkage maps, Mendelian ratio test of individual markers, estimates of recombination frequencies, LOD scores, and genetic distances, and the input files for using the BIP, SDL, and MET functionalities. More than 30 output files are generated by BIP, including results at all scanning positions, identified QTL, permutation tests, and detection powers for up to six mapping methods. Three supplementary tools have also been developed to display completed genetic linkage maps, to estimate recombination frequency between two loci, and to perform analysis of variance for multi-environmental trials. |
| format | Journal Article |
| id | CGSpace170930 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2015 |
| publishDateRange | 2015 |
| publishDateSort | 2015 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | CGSpace1709302025-09-25T13:01:42Z QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations Meng, Lei Li, Huihui Zhang, Luyan Wang, Jiankang genetic resources QTL IciMapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci (QTL) in biparental populations. Eight functionalities are integrated in this software package: (1) BIN: binning of redundant markers; (2) MAP: construction of linkage maps in biparental populations; (3) CMP: consensus map construction from multiple linkage maps sharing common markers; (4) SDL: mapping of segregation distortion loci; (5) BIP: mapping of additive, dominant, and digenic epistasis genes; (6) MET: QTL-by-environment interaction analysis; (7) CSL: mapping of additive and digenic epistasis genes with chromosome segment substitution lines; and (8) NAM: QTL mapping in NAM populations. Input files can be arranged in plain text, MS Excel 2003, or MS Excel 2007 formats. Output files have the same prefix name as the input but with different extensions. As examples, there are two output files in BIN, one for summarizing the identified bin groups and deleted markers in each bin, and the other for using the MAP functionality. Eight output files are generated by MAP, including summary of the completed linkage maps, Mendelian ratio test of individual markers, estimates of recombination frequencies, LOD scores, and genetic distances, and the input files for using the BIP, SDL, and MET functionalities. More than 30 output files are generated by BIP, including results at all scanning positions, identified QTL, permutation tests, and detection powers for up to six mapping methods. Three supplementary tools have also been developed to display completed genetic linkage maps, to estimate recombination frequency between two loci, and to perform analysis of variance for multi-environmental trials. 2015-06 2025-01-29T12:57:29Z 2025-01-29T12:57:29Z Journal Article https://hdl.handle.net/10568/170930 en Open Access Elsevier Meng, Lei; Li, Huihui; Zhang, Luyan; and Wang, Jiankang. QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations. The Crop Journal 3(3): 269-283. https://doi.org/10.1016/j.cj.2015.01.001 |
| spellingShingle | genetic resources Meng, Lei Li, Huihui Zhang, Luyan Wang, Jiankang QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| title | QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| title_full | QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| title_fullStr | QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| title_full_unstemmed | QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| title_short | QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| title_sort | qtl icimapping integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations |
| topic | genetic resources |
| url | https://hdl.handle.net/10568/170930 |
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