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73 commits

Author SHA1 Message Date
Waldir Leoncio
63af25a63d Auto-recognizing format of greedyMix() data 
Works as long as there's only one period in the file path
 2023-09-14 11:11:37 +02:00
Waldir Leoncio
a73752364b Fixed output of greedyMix() 2023-09-14 11:02:06 +02:00
Waldir Leoncio
ceaf7eca4b Added verbose argument to writeMixtureInfo() 2023-09-11 14:06:45 +02:00
Waldir Leoncio
70ec460106 Fixed docs 2023-09-11 13:13:55 +02:00
Waldir Leoncio
76828387a3 Fixed basic parsing of FASTA files (#25) 2023-09-11 12:15:30 +02:00
Waldir Leoncio
372891fbe1 Fixed to indMix (#25) 2023-08-11 14:31:08 +02:00
Waldir Leoncio
3537f18d2c Incorporated handleData() on greedyMix() (#25) 2023-08-11 11:18:03 +02:00
Waldir Leoncio
bd932e2b6d Added missing documentation for arguments (#25) 2023-08-09 15:27:45 +02:00
Waldir Leoncio
b75d38fee4 Fixed argument passing (#25) 2023-08-09 14:45:43 +02:00
Waldir Leoncio
b034158e2b Improved handling of NULL objects (#25) 2023-08-09 14:17:17 +02:00
Waldir Leoncio
15da6cdced Improved argument retrieval on greedyMix() (#25) 2023-08-09 13:13:50 +02:00
Waldir Leoncio
bfeb2796c2 Improved example (#25) 2023-08-09 13:13:16 +02:00
Waldir Leoncio
ba968e77d5 Syntax fix to indMix() (#25) 2023-08-09 13:12:18 +02:00
Waldir Leoncio
3069577ebd Removing handleData() from greedyMix() (#25) 
Apparently that function is only used if the input is Genepop or BAPS format. However, its code might be useful for reducing some of the input of greedyMix(), as it contains the calculation for them.
 2023-08-09 12:50:33 +02:00
Waldir Leoncio
cae1fe4c1e Incorporating subfunctions of greedyMix() (#25) 2023-08-09 12:06:09 +02:00
Waldir Leoncio
103dc6acd6 Added MATLAB code from original greedyMix() (#25) 2023-08-09 11:26:29 +02:00
Waldir Leoncio
bf7d05eb8d Moved file import away from greedyMix() (#25) 2023-08-09 11:11:12 +02:00
Waldir Leoncio
687a6fb671 Moved used datasets to /isnt/extdata (#25) 2023-08-09 10:54:48 +02:00
Waldir Leoncio
835ac7e6b9 Fixed several linting issues 2022-07-28 15:47:36 +02:00
Waldir Leoncio
ea0190b874 Syntax fixes, added documentation 2022-07-19 14:34:08 +02:00
Waldir Leoncio
95ff85f021 Added read.genepop() to greedyMix() (closes #19) 2022-01-27 11:16:32 +01:00
Waldir Leoncio
fca9caa731 Restyled files 
Ran through styler::style_dir() in the R and tests directories in preparation for #23.
 2021-11-10 14:25:50 +01:00
Waldir Leoncio
2b70817317 Improved handling of data input on greedyMix 2021-09-03 13:08:40 +02:00
Waldir Leoncio
4d5539c402 Improved user feedback 2021-09-03 12:58:04 +02:00
Waldir Leoncio
be2dbd02b2 Dependency fixes 2021-09-03 12:56:00 +02:00
Waldir Leoncio
0cfd13b006 Added SAM/BAM support (closes #18) 2021-09-03 12:50:28 +02:00
Waldir Leoncio
15f2cbcf08 Replaced SAM example 
Current one from https://genome.sph.umich.edu/wiki/SAM. Readable by the "VladaMilch/pdProbeRemap" package.
 2021-09-03 12:10:05 +02:00
Waldir Leoncio
8b44947ecb Fixed dependencies 2021-09-03 11:17:00 +02:00
Waldir Leoncio
c06943d1b4 Closed TODO 2021-09-03 11:11:55 +02:00
Waldir Leoncio
3fd15086af Added greedyMix support for VCF (closes #17) 2021-09-03 11:10:06 +02:00
Waldir Leoncio
448b3fe226 Updated TODOs to match issues 2021-09-03 09:14:52 +02:00
Waldir Leoncio
a296f9f8fb greedyMix changed to channel data load (close #16) 2021-09-03 08:50:23 +02:00
Waldir Leoncio
cafd194880 Replaced greedyMix() with a stop message 2021-08-23 06:40:49 +02:00
Waldir Leoncio
8956949bff Refactoring and syntax fixes 2021-06-29 10:41:23 +02:00
Waldir Leoncio
4520fd30fb Fixed syntax 2021-05-20 09:18:05 +02:00
Waldir Leoncio
aec2f40c2c Syntax fixes 2021-03-31 10:31:14 +02:00
Waldir Leoncio
d16de2ba7d Uncommented translated functions 2021-03-30 08:34:41 +02:00
Waldir Leoncio
ef540baf7e Reformatting BAPS input 2021-03-30 08:34:31 +02:00
Waldir Leoncio
c7720f33b4 Fixed output formatting 2021-03-30 08:23:37 +02:00
Waldir Leoncio
f70277cd6a Fixed delimiter for BAPS-formatted file 2021-03-30 08:22:24 +02:00
Waldir Leoncio
68ad663ce1 Fixed syntax 2021-01-15 11:46:53 +01:00
Waldir Leoncio
0fec3ab096 Cleanup of commented-out code 2020-11-19 13:31:20 +01:00
Waldir Leoncio
a3fcaf17dd Translated rand_disc 2020-11-19 12:15:16 +01:00
Waldir Leoncio
a7291a9e79 Refactoring 2020-11-19 08:45:50 +01:00
Waldir Leoncio
f886feb3a8 Translated admixture_initialization 2020-10-19 13:44:18 +02:00
Waldir Leoncio
d57be6a8f3 Updated documentation 2020-07-31 14:05:55 +02:00
Waldir Leoncio
f89a6e9fa3 Fixed syntax 2020-07-31 14:00:29 +02:00
Waldir Leoncio
56d8a5c081 Unraveled internal functions of greedyMix 2020-07-28 15:51:28 +02:00
Waldir Leoncio
ba1573ad59 Fixed behavior of testaaGenePopData 2020-07-28 11:45:28 +02:00
Waldir Leoncio
743c39afba Translated clearGlobalVars() 2020-07-14 15:59:16 +02:00