PMBio hipsci_pipeline issues

PMBio / hipsci_pipeline

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Minor bug fixes

#118 Bonder-MJ closed 5 years ago
0
minor update on snp post processing & global fdr estimation

#117 Bonder-MJ closed 5 years ago
0
Updates on QC info and interaction code

#116 Bonder-MJ closed 5 years ago
0
Updated to limix 2.0 including bgen updates

#115 Bonder-MJ closed 5 years ago
0
Fixes and tests for get_shuffeld_genotypes_preserving_kinship

#114 danielseaton closed 5 years ago
0
Permutations of genotypes, while accounting for kinship

#113 danielseaton opened 5 years ago
0
Very late push of code

#112 Bonder-MJ closed 5 years ago
0
Replace the bgen test genotypes

#111 Bonder-MJ closed 6 years ago
0
Updates to main QTL mapping to include more information in run

#110 Bonder-MJ closed 6 years ago
0
various small updates

#109 mirauta closed 6 years ago
0
Minor bug fix and update

#108 Bonder-MJ closed 6 years ago
1
Introduction of GRS QT mapping & various small fixes

#107 Bonder-MJ closed 6 years ago
0
jobs fail for regions with no genes

#106 mirauta closed 6 years ago
0
Beta distribution parameters retrieval

#105 Bonder-MJ closed 6 years ago
0
post updates (added features to produce snp_list and plots)

#104 mirauta closed 6 years ago
0
Zero permutation fix and changes to allow non autosome QTL mappings

#103 Bonder-MJ closed 6 years ago
0
Fix

#102 Bonder-MJ closed 6 years ago
0
Opening output file should use os.path

#101 danielseaton opened 7 years ago
0
post processing python and added np.as_array for limix output in run_QTL_analysis.py

#100 mirauta closed 7 years ago
0
update empirical_feature_p_value field

#99 mirauta closed 7 years ago
0
Fix for corrected Pvalue

#98 Bonder-MJ closed 7 years ago
0
corr_p_value still in. any reason?

#97 mirauta closed 7 years ago
0
postprocessing python scripts

#96 mirauta closed 7 years ago
0
Introduction of new features and flag renaming

#95 Bonder-MJ closed 7 years ago
0
P-values turning 0

#94 Bonder-MJ closed 6 years ago
1
installation update and speed up QTL

#93 Bonder-MJ closed 7 years ago
0
post-processing function added

#92 mirauta closed 7 years ago
0
adding postprocessing functions

#91 mirauta closed 7 years ago
0
Feature selection update for smaller than chromosome regions

#90 Bonder-MJ closed 7 years ago
0
fix in extended annotation selector

#89 Bonder-MJ closed 7 years ago
0
feature_id not found in index of complete_annotation_df when using multiregion option

#88 danielseaton closed 7 years ago
0
Import sys missing

#87 Bonder-MJ closed 7 years ago
0
Fix in SNP selection

#86 Bonder-MJ closed 7 years ago
0
File selection issue postprocessing R

#85 Bonder-MJ closed 7 years ago
0
updated trans post processing and adding more options to the force norm

#84 mirauta closed 7 years ago
0
Clean ups and fix in fixed error in MLE for FDR

#83 Bonder-MJ closed 7 years ago
0
issue in normalization

#82 mirauta opened 7 years ago
0
Small updates

#81 Bonder-MJ closed 7 years ago
0
Fixes and restructuring of last updates and addition of smaller than chromosome partitioning.

#80 Bonder-MJ closed 7 years ago
0
Allow specification of multiple genomic regions for a given feature

#79 danielseaton closed 7 years ago
0
Allow multiple genomic regions to be specified for each feature

#78 danielseaton closed 7 years ago
7
Renaming and small updates to pipeline

#77 Bonder-MJ closed 7 years ago
0
function to intersect data

#76 mirauta closed 7 years ago
0
moved the intersection of phenotype, genotype,kinship, samplemap to a

#75 mirauta closed 7 years ago
0
moved the intersection of phenotype, genotype,kinship, samplemap to a…

#74 mirauta closed 7 years ago
0
Optimal second stage multiple testing correction

#73 Bonder-MJ closed 6 years ago
0
Speed up analysis for trans

#72 Bonder-MJ closed 7 years ago
0
Memory issue when writing out permuted data

#71 Bonder-MJ opened 7 years ago
2
Option to run on smaller than chromosome regions.

#70 Bonder-MJ closed 7 years ago
0
Description of input files on wiki

#69 davismcc closed 7 years ago
2