fastlmm FaST-LMM issues

fastlmm / FaST-LMM

Python version of Factored Spectrally Transformed Linear Mixed Models

https://fastlmm.github.io/

Apache License 2.0

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issues

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update fastlmm package in bioconda channel

#54 JorgeHB14 opened 1 week ago
1
ValueError: No individual observed for the SNP

#53 AbestSG closed 3 months ago
2
synthetic dataset documentation

#52 snowformatics opened 4 months ago
1
single_snp with large number of SNPs

#51 snowformatics opened 4 months ago
5
using only one chromosome

#50 snowformatics closed 4 months ago
2
Kinship

#49 snowformatics closed 5 months ago
9
Error in plotp.py: 'Legend' object has no attribute 'legendHandles'

#48 vb-iman opened 5 months ago
1
q-values in single_snp() output?

#47 Jorge-Hernansanz closed 5 months ago
2
how to calculate phenotypic variance explained

#46 carrot881216 closed 5 months ago
1
Using FaST-LMM single_snp() in a cluster server

#45 Jorge-Hernansanz closed 6 months ago
5
Calculate heritability

#44 snowformatics closed 6 months ago
2
Filtering on allele frequency and outputting allele frequency in result

#43 vb-iman closed 6 months ago
3
warpedlmm installation

#42 asifzubair closed 7 months ago
2
TypeError in flutil.manhattan_plot()

#41 vb-iman closed 6 months ago
7
AttributeError; scipy vs numpy in utils

#40 vb-iman closed 6 months ago
6
PValue Output Format

#39 snowformatics closed 7 months ago
16
Remove links to nbviewer.org (notebooks don't need it anymore)

#38 snowformatics closed 6 months ago
13
Unable to run with multiple phenotypic traits together

#37 jefflllyyy closed 7 months ago
1
[Feature Request] Allow string as chromosom names

#36 snowformatics closed 1 year ago
4
ValueError: No individual observed for the SNP

#35 snowformatics closed 1 year ago
4
FloatingPointError: divide by zero encountered in true_divide

#34 zhaouu closed 1 year ago
3
Replacement for fastlmm.util.stats.quadform?

#33 yyang-peko closed 1 year ago
1
Support cbgen>=1.0.1

#32 ofrei closed 5 months ago
4
Ill-formed BED file. BED file header is incorrect or length is wrong

#31 snowformatics closed 1 year ago
4
Run without PLINK format

#30 snowformatics closed 1 year ago
2
epistatis test error

#29 snowformatics closed 1 year ago
8
Hapmap format

#28 snowformatics closed 2 years ago
2
Understanding SNPWeight Column and Conversion to Effect Size Estimation

#27 CSGallagher closed 1 year ago
4
When number of multiple phenotypes is large, run them in batches.

#26 CarlKCarlK opened 2 years ago
0
Scaling of beta estimates with case control analyses

#25 CSGallagher closed 2 years ago
2
How to tell which allele is used as reference for effect size estimates?

#24 CSGallagher closed 2 years ago
2
Some tests are skipped due to duplicate names fix

#23 code-review-doctor closed 2 years ago
1
Some tests are skipped due to duplicate names

#22 code-review-doctor closed 1 year ago
1
Scipy.dot and scipy.log etc are deprecated. Replace with numpy

#21 CarlKCarlK closed 1 year ago
0
Issue with multiple phenotype files

#20 koa-planedin closed 3 years ago
6
Fatal Error : Expected a Chromosome in the form of an integer or a string X, Y, XY, or MT in file

#19 tinameiring closed 1 year ago
1
Installing fast-lmm on CentOS 7

#18 snowformatics closed 1 year ago
3
ValueError: No objects to concatenate

#17 snowformatics closed 3 years ago
3
Epistatic interaction coefficient and error

#16 edinburgh-biomedical-ai closed 5 months ago
5
Added color and ax options to manhattan_plot in util.py

#15 lucasmiranda42 opened 3 years ago
0
Result of single_snp analysis has fewer SNPs than input

#14 lucasmiranda42 closed 3 years ago
3
fastlmm doesn't work with newest version of pip

#13 CarlKCarlK closed 3 years ago
0
LMM.getPosteriorWeights() returns inconsitent results

#12 remomomo closed 3 years ago
3
GenDist is NaN after running single_snp analysis

#11 lucasmiranda42 closed 3 years ago
4
Why did Bed.pos switch from int to float?

#10 remomomo closed 3 years ago
1
SNPs from different replicons should be in one input file or separate?

#9 limin321 closed 3 years ago
3
Installation problems on Windwos10

#8 snowformatics closed 3 years ago
7
Adding ubuntu docker build + instructions

#7 eric-czech opened 4 years ago
0
fastlmm.association import fails || 86_64-linux-gnu.so: undefined symbol: mkl_serv_inspector_loaded

#6 complexgenome closed 3 years ago
4
How to generate the input file

#5 panruiqing closed 3 years ago
5