bodkan/admixr

Issues

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

  #91 opened 5 months ago by bodkan
  1

• Fix a (potential) issue with log paths on Windows?

  #57 opened 3 years ago by bodkan
  13

• Error in F3: Following samples are not present

  #90 opened a year ago by ans6160
  2

• Deal with ADMIXTOOLS crashes properly

  #52 opened 4 years ago by bodkan
  6

• admixr does not find qpDstat

  #89 opened 2 years ago by nicolo-tellini
  3

• "inbreed:NO means base population must have hets!"

  #88 opened 2 years ago by Agenetics
  8

• issue with filter_bed: Inconsistent naming convention

  #72 opened 2 years ago by mgb1985
  8

• Check whitespace handling in EIGENSTRAT paths

  #79 opened 2 years ago by bodkan
  1

• Take `$excluded` into account when running `count_snps()` on the geno file

  #70 opened 2 years ago by bodkan
  0

• Describe optional parameter specification in more detail

  #75 opened 2 years ago by bodkan
  0

• Silence new readr warnings/messages

  #87 opened 2 years ago by bodkan
  1

• Move from Travis to Github Actions

  #85 opened 2 years ago by bodkan
  1

• qpAdm_rotation problem when nsources >= 3

  #77 opened 2 years ago by paikusuma
  3

• Check for correct identity of the "data" argument in all wrappers

  #61 opened 2 years ago by bodkan
  2

• bad chrom: conting111,The number of genome conting more than 1000?

  #78 opened 3 years ago by biofang
  1

• Error: Not all three ind/snp/geno files present

  #84 opened 3 years ago by kawu001
  6

• There seems to have a limit for how many combinations of f4 can be computed at once

  #86 opened 3 years ago by dangliu
  5

• custom jackknife

  #83 opened 3 years ago by nicolo-tellini
  4

• Differentiating between the two admixr packages

  #46 opened 3 years ago by s-usr
  1

• pop: has sample size 1 and inbreed set

  #82 opened 3 years ago by sahwa
  1

• f4 stats all zero. Rank 0!. Aborting run

  #80 opened 3 years ago by sahwa
  4

• filter the geno file for transitions

  #81 opened 3 years ago by mariels
  3

• AABB/BBAA sites

  #74 opened 4 years ago by qhelleu
  1

• Outgroup f3

  #76 opened 4 years ago by murielgb
  7

• admixR and non-standard Chromosome names

  #73 opened 4 years ago by Marvin02860
  5

• How does admixr calculate stats for populations (multiple individuals belonging to same group)?

  #71 opened 4 years ago by jychoilab
  1

• d() crashes with segmentation fault

  #69 opened 4 years ago by THccaa
  2

• Add exhaustive exploration of qpAdm models

  #54 opened 4 years ago by bodkan
  2

• Note on the pre-screening functionality

  #62 opened 4 years ago by bodkan
  0

• Fix strange error during CRAN submission

  #64 opened 4 years ago by bodkan
  4

• ROLLOFF

  #66 opened 4 years ago by foala
  1

• Add possibility to calculate f3 for all combinations

  #32 opened 4 years ago by bodkan
  0

• Add description of adding ADMIXTOOLS to $PATH

  #33 opened 4 years ago by bodkan
  0

• Another duplicated populations error

  #48 opened 4 years ago by bodkan
  0

• Find a way to specify the paths to ADMIXTOOLS binaries

  #29 opened 4 years ago by bodkan
  1

• Implement some of the useful "convertf" functionality

  #43 opened 4 years ago by bodkan
  0

• Look into the f3 problems when same population is used twice

  #44 opened 4 years ago by bodkan
  0

• Problems with only one source in qpAdm

  #51 opened 4 years ago by bodkan
  0

• Deal with truncated log files properly

  #47 opened 4 years ago by bodkan
  0

• Use a data.table backend?

  #53 opened 4 years ago by bodkan
  1

• "d" or "f4" statistics output always stderr = 1

  #56 opened 4 years ago by DanielRamos12
  2

• An error returning empty dataframe

  #55 opened 4 years ago by aromaze85
  2

• admixr result

  #49 opened 4 years ago by smallfishcui
  3

• Passing Params to PAR File

  #50 opened 5 years ago by testeranon
  3

• f3 has no results from my data

  #45 opened 5 years ago by yimingweng
  1

• Check log file before parsing in case ADMIXTOOLS crashes

  #35 opened 6 years ago by bodkan
  2

• Convert 9 <-> NA in read_geno/write_geno

  #42 opened 6 years ago by bodkan
  1

• Figure out a way to automatically build package website during Travis CI builds

  #28 opened 6 years ago by bodkan
  0

• Add a faster VCF --> EIGENSTRAT parser

  #34 opened 6 years ago by bodkan
  1

• Add R wrapper around `mergeit`

  #27 opened 6 years ago by bodkan
  1