alimanfoo anhima issues

alimanfoo / anhima

Analyse genetic variation.

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issues

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Fix utils

#79 hardingnj opened 8 years ago
2
Jsfs

#78 hardingnj closed 8 years ago
0
PY3 support

#77 alimanfoo closed 9 years ago
1
locate_postion prints to console

#76 hardingnj closed 9 years ago
2
Add aws

#75 hardingnj closed 9 years ago
5
Multi-chromosome variant locator

#74 alimanfoo opened 9 years ago
0
AN array has two dimensions but needs only one

#73 alimanfoo opened 9 years ago
0
Samplefix

#72 hardingnj closed 9 years ago
1
LD plot aspect ratio

#71 alimanfoo opened 9 years ago
0
Improve performance of anhima.ld.ld_prune_pairwise

#70 alimanfoo closed 9 years ago
0
Locate intervals

#69 alimanfoo closed 9 years ago
2
Population ancestry likelihood

#68 alimanfoo closed 9 years ago
1
Fixed typo in chrom spec

#67 hardingnj closed 9 years ago
2
Adding check for basestring

#66 hardingnj closed 9 years ago
1
Rename take_ to view_

#65 alimanfoo closed 9 years ago
0
Extracting samples API flexibility

#64 alimanfoo closed 9 years ago
0
Use in place operations when packing/unpacking genotypes

#63 alimanfoo closed 9 years ago
0
Axis hints in docstrings

#62 alimanfoo closed 9 years ago
0
Subselection routines in anhima.loc support multiple arrays

#61 alimanfoo closed 9 years ago
1
Addtped

#60 hardingnj closed 9 years ago
5
Added check if a basestring

#59 hardingnj closed 9 years ago
4
Impute inheritance

#58 alimanfoo closed 9 years ago
0
Mendelian errors on sex chromosome

#57 alimanfoo opened 9 years ago
0
Locate position, locate positions

#56 alimanfoo closed 9 years ago
0
Modify pack/unpack diploid such that 0 encodes ref/ref

#55 alimanfoo closed 9 years ago
0
Bug in anhima.gt.pack_diploid for higher alleles

#54 alimanfoo closed 9 years ago
0
Support array-like arguments throughout

#53 alimanfoo closed 9 years ago
0
Document dependencies

#52 alimanfoo opened 9 years ago
0
Multiallelic Mendelian errors

#51 alimanfoo closed 9 years ago
1
Sparse genotypes

#50 alimanfoo opened 9 years ago
1
Transform genotypes to per call allele counts

#49 alimanfoo closed 9 years ago
0
Pedigree phasing

#48 alimanfoo opened 9 years ago
0
Diploid Mendel errors

#47 alimanfoo closed 9 years ago
0
Diploid optimisations for anhima.gt.is_het etc.

#46 alimanfoo closed 9 years ago
0
Adding mendelian error code

#45 hardingnj closed 9 years ago
1
Add option to normalise total doubleton counts by number of samples

#44 alimanfoo closed 10 years ago
0
Fix alignment of total counts in anhima.f2.plot_f2_fig

#43 alimanfoo closed 10 years ago
0
Option to apply variant query when loading from HDF5

#42 alimanfoo closed 10 years ago
1
Drop heatmap plot of shared doubletons

#41 alimanfoo closed 10 years ago
0
Break doubleton sharing functions into separate module

#40 alimanfoo closed 10 years ago
1
Break site frequency spectrum functions into separate module

#39 alimanfoo closed 10 years ago
1
Y limits for plotting shared doubleton counts

#38 alimanfoo closed 10 years ago
1
Break apart plotting functions for shared doubleton counts

#37 alimanfoo closed 10 years ago
1
Normalise shared doubleton counts by number of distinct pairs

#36 alimanfoo closed 10 years ago
1
Write genotypes in TPED format

#35 alimanfoo closed 9 years ago
2
Subsample chunks (anhima.h5)

#34 alimanfoo closed 9 years ago
1
Haplotype bifurcation plots

#33 alimanfoo opened 10 years ago
0
Add see also from anhima.mds functions to pairwise distance function

#32 alimanfoo closed 9 years ago
0
Unpack multiallelic variants

#31 alimanfoo opened 10 years ago
0
Convenience functions to find fixed differences between populations and private variants

#30 alimanfoo opened 10 years ago
0