Lep-MAP3 Code
Brought to you by:
lep-map
File | Date | Author | Commit |
---|---|---|---|
scripts | 2024-02-28 | Rastas Pasi M A | [6a3e86] ParentCallPloidy |
src | 2024-02-28 | Rastas Pasi M A | [6a3e86] ParentCallPloidy |
COPYING | 2016-09-19 | pmr47 | [0b8bea] Bugfixes |
README | 2022-06-17 | Pasi Rastas | [baa04f] CallMutations |
qtl.R | 2021-05-04 | Pasi Rastas | [ab4833] QTL pipeline |
qtl.png | 2021-05-04 | Pasi Rastas | [ab4833] QTL pipeline |
qtlPerm.R | 2021-05-04 | Pasi Rastas | [ab4833] QTL pipeline |
qtldata1.12 | 2021-05-04 | Pasi Rastas | [ab4833] QTL pipeline |
qtlphenotypes.txt | 2021-05-04 | Pasi Rastas | [ab4833] QTL pipeline |
Lep-MAP3 (v. 0.5) Linkage map construction suite See Lep-MAP3 wiki on sourceforge for documentation. The files included: simulated_data.zip : Used simulated data, commands to run and evaluate MSTmap and Lep-MAP3 on the data simulated_scripts.zip : Only the scripts to generate the simulated data binary+code.zip : Lep-MAP3 binaries + source code binary.zip : Lep-MAP3 binaries only How to run Lep-MAP3 (compiled classes located in the folder bin): java -cp bin/ ParentCall2 java -cp bin/ Filtering2 java -cp bin/ SeparateChromosomes2 java -cp bin/ JoinSingles2All java -cp bin/ OrderMarkers2 java -cp bin/ LMPlot java -cp bin/ Pileup2Likelihoods (java -cp bin/ OutputData) These are now removed #java -cp bin/ SeparateIdenticals #java -cp bin/ JoinSingles2Identicals #java -cp bin/ ShortPath How to compile Lep-MAP3: javac src/*.java -d bin/ (C) 2016-2022, Pasi Rastas, University of Cambridge and University of Helsinki