broadinstitute tensorqtl issues

broadinstitute / tensorqtl

Ultrafast GPU-enabled QTL mapper

BSD 3-Clause "New" or "Revised" License

162 stars 52 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

bed file when having multiple TSS

#170 liaguiro opened 2 days ago
1
recommendations for lcWGS derived genotype likelihoods

#169 laurahspencer opened 1 week ago
1
Beta p-values

#168 JamesTanShengYi opened 1 week ago
0
Warnings and Errors When Running TensorQTL Example in Jupyter Notebook

#167 Alice9503 opened 2 weeks ago
2
Error in Computing q-values: ValueError: array must not contain infs or NaNs

#166 Alice9503 opened 2 weeks ago
4
Allele specific expression QTLs using mixQTL module in tensorQTL

#165 mpmargolis opened 3 weeks ago
0
beta_shape1 and beta_shape2 are all NaNs in trans.map_permutations

#164 Jesson-mark closed 1 month ago
1
Tensorqtl skip some variants in cis mode

#163 zhangpicb closed 1 month ago
4
what impact an unsorted BED file might have on the results?

#162 qizhengyang2017 opened 1 month ago
1
sQTL cis mod output file only one cluster per gene

#161 zhangpicb closed 1 month ago
3
trans interaction

#160 cora97846 opened 1 month ago
1
trans interactions QTL

#158 cora97846 opened 1 month ago
2
error while conducting permutations for cis-eQTL

#157 Vibha-Acharya opened 1 month ago
8
adjusted pvals for trans-QTL mapping

#155 liaguiro opened 2 months ago
0
parquet files

#154 liaguiro closed 1 week ago
1
kinship matrix

#153 liaguiro opened 2 months ago
0
Are genotypes only numeric? Can they be categorical?

#152 ysc12451 opened 2 months ago
0
How to get all significant phenotype-variants pairs in cis-QTL permutations mapping mode?

#151 xiaohe0404 closed 1 month ago
3
variant ids missing [dots only]

#150 liaguiro closed 1 week ago
1
error Specify dtype option on import or set low_memory=False

#149 liaguiro closed 2 months ago
2
random factor

#148 liaguiro opened 2 months ago
0
interaction file format

#147 liaguiro opened 2 months ago
0
Corections for multiple tests for trans-eQTL

#146 AlexandreHUBERT17 opened 3 months ago
2
Categorical covariates

#145 malonzm1 closed 3 months ago
1
Any way i can go around this error?

#144 maxozo opened 3 months ago
2
Phenotype file format

#143 malonzm1 closed 3 months ago
6
cis_independent requires covariate_df

#142 MarcElosua closed 3 months ago
1
Questions about the `map_permutations` and `apply_permutations` functions

#141 Jesson-mark opened 4 months ago
0
Catch and pass on exceptions from background generators.

#140 kshakir closed 3 months ago
2
Errors in the BackgroundGenerator cause main thread to get stuck

#139 kshakir closed 3 months ago
1
cis-mapping with interaction

#138 SynaSpike opened 6 months ago
1
Which beta coresponds to which allele in the outputs?

#137 maxozo closed 1 week ago
9
reparameterize the beta parameter estimation for easier optimization

#136 thouis closed 3 months ago
2
[pval post-processing] Interaction output for cis/trans

#135 lintingyi2014 opened 7 months ago
1
[map_trans] R2 not returned in interaction analysis

#134 lintingyi2014 closed 7 months ago
2
[trans] trans.map_permutations(): KeyError: 'r2'

#133 lintingyi2014 closed 7 months ago
2
[Susie] ValueError: prior variance must be non-negative

#132 lintingyi2014 closed 7 months ago
4
interaction

#131 cora97846 closed 7 months ago
1
ValueError: array must not contain infs or NaNs

#130 desindygogo opened 8 months ago
1
No credible sets output from susie.map because pval_nominal=0

#129 cldebban opened 8 months ago
3
Tensorqtl installation

#128 JingjingBai2021 closed 5 months ago
3
broken link

#127 maallen3 closed 8 months ago
1
AttributeError: 'dict' object has no attribute 'T' tensorqtl

#126 lintingyi2014 closed 8 months ago
2
Issues with TensorQTL in Trans Mode

#125 hnaeem closed 3 months ago
1
Memory Allocation Issue during trans-QTL Mapping

#124 wangyf1125 opened 9 months ago
3
Warning and Error in tensorQTL trans mode

#123 hnaeem closed 3 months ago
9
scipy.optimize.newton failed to converge

#122 inabro closed 3 months ago
1
Abnormal results of interaction model

#121 yrjia1015 closed 10 months ago
4
missing tss_distance in cis output

#120 inabro closed 10 months ago
1
Negative af in output files

#119 maxozo closed 3 months ago
7