bodkan admixr issues - Githubissues

bodkan / admixr

An R package for reproducible and automated ADMIXTOOLS analyses

https://bodkan.net/admixr

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issues

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Add a function for writing (filtered/modified) EIGENSTRAT data to a new location

#91 bodkan opened 4 months ago
1
Error in F3: Following samples are not present

#90 ans6160 closed 1 year ago
2
admixr does not find qpDstat

#89 nicolo-tellini closed 1 year ago
3
"inbreed:NO means base population must have hets!"

#88 Agenetics closed 2 years ago
8
Silence new readr warnings/messages

#87 bodkan closed 2 years ago
1
There seems to have a limit for how many combinations of f4 can be computed at once

#86 dangliu closed 3 years ago
5
Move from Travis to Github Actions

#85 bodkan closed 2 years ago
1
Error: Not all three ind/snp/geno files present

#84 kawu001 closed 2 years ago
6
custom jackknife

#83 nicolo-tellini closed 3 years ago
4
pop: has sample size 1 and inbreed set

#82 sahwa closed 3 years ago
1
filter the geno file for transitions

#81 mariels closed 3 years ago
3
f4 stats all zero. Rank 0!. Aborting run

#80 sahwa closed 3 years ago
4
Check whitespace handling in EIGENSTRAT paths

#79 bodkan closed 2 years ago
1
bad chrom: conting111,The number of genome conting more than 1000?

#78 biofang closed 2 years ago
1
qpAdm_rotation problem when nsources >= 3

#77 paikusuma closed 2 years ago
3
Outgroup f3

#76 murielgb closed 3 years ago
7
Describe optional parameter specification in more detail

#75 bodkan closed 2 years ago
0
AABB/BBAA sites

#74 qhelleu closed 3 years ago
1
admixR and non-standard Chromosome names

#73 Marvin02860 closed 4 years ago
5
issue with filter_bed: Inconsistent naming convention

#72 mgb1985 closed 2 years ago
8
How does admixr calculate stats for populations (multiple individuals belonging to same group)?

#71 jychoilab closed 4 years ago
1
Take `$excluded` into account when running `count_snps()` on the geno file

#70 bodkan closed 2 years ago
0
d() crashes with segmentation fault

#69 THccaa closed 4 years ago
2
Address the "runnable examples" CRAN issue

#68 bodkan closed 4 years ago
0
CRAN re-submission - add examples, handle printing output properly

#67 bodkan closed 4 years ago
0
ROLLOFF

#66 foala closed 4 years ago
1
Make ADMIXTOOLS $PATH checking more robust on different platforms

#65 bodkan closed 4 years ago
0
Fix strange error during CRAN submission

#64 bodkan closed 4 years ago
4
Add prototype of qpAdm rotation strategy

#63 bodkan closed 4 years ago
0
Note on the pre-screening functionality

#62 bodkan closed 4 years ago
0
Check for correct identity of the "data" argument in all wrappers

#61 bodkan closed 2 years ago
2
Fix broken handling of single-source qpAdm runs (fixes #51)

#60 bodkan closed 4 years ago
0
Check truncated output

#59 bodkan closed 4 years ago
0
Implementation of examining log output information

#58 bodkan closed 4 years ago
0
Fix a (potential) issue with log paths on Windows?

#57 bodkan opened 4 years ago
13
"d" or "f4" statistics output always stderr = 1

#56 DanielRamos12 closed 4 years ago
2
An error returning empty dataframe

#55 aromaze85 closed 4 years ago
2
Add exhaustive exploration of qpAdm models

#54 bodkan closed 4 years ago
2
Use a data.table backend?

#53 bodkan closed 4 years ago
1
Deal with ADMIXTOOLS crashes properly

#52 bodkan closed 4 years ago
6
Problems with only one source in qpAdm

#51 bodkan closed 4 years ago
0
Passing Params to PAR File

#50 testeranon closed 4 years ago
3
admixr result

#49 smallfishcui closed 4 years ago
3
Another duplicated populations error

#48 bodkan closed 4 years ago
0
Deal with truncated log files properly

#47 bodkan closed 4 years ago
0
Differentiating between the two admixr packages

#46 s-usr closed 3 years ago
1
f3 has no results from my data

#45 yimingweng closed 5 years ago
1
Look into the f3 problems when same population is used twice

#44 bodkan closed 4 years ago
0
Implement some of the useful "convertf" functionality

#43 bodkan closed 4 years ago
0
Convert 9 <-> NA in read_geno/write_geno

#42 bodkan closed 5 years ago
1