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Atkinson-Lab
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Tractor
Scripts for implementing the Tractor pipeline
MIT License
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run_tractor.R: Option to output ancestry allele frequencies by group
#43
la-mendicino
opened
2 weeks ago
0
FLARE: Recovering Haplotypes Disrupted by Statistical Phasing
#42
la-mendicino
opened
1 month ago
0
Highly inflated p-value in Tractor GWAS
#41
ryshi06
opened
1 month ago
2
Support for mixed models
#40
la-mendicino
opened
1 month ago
0
Multi-ancestry meta-analysis
#38
sarahcolbert
closed
4 months ago
1
v1.4.1 - add catcovarcollist argument & some log cleanup
#37
kscott-1
closed
5 months ago
0
Question regarding VCFs and issue with the R script
#36
EfraMP
closed
1 month ago
3
add SE for LA term and alt allele term to output
#35
kscott-1
closed
6 months ago
0
Inclusion of stderr and other possible enhancements
#34
kscott-1
closed
6 months ago
0
allow for either .txt or .txt.gz hapdose files
#33
kscott-1
closed
6 months ago
0
No gzip support in run_tractor.R
#32
kscott-1
closed
6 months ago
0
Index error using imputed VCF when extracting tracts
#31
silviaadiz
closed
6 months ago
6
Error while running run_tractor.R
#30
EfraMP
closed
9 months ago
3
NaNs for some variants in output
#29
samreenzafer
closed
9 months ago
5
Getting errors after running extract_tracts.py
#28
EfraMP
closed
10 months ago
2
Differences in AF between original version and v 1.1.0
#27
nick338
closed
8 months ago
2
`extract_tracks.py`: NameError: name 'output_files' is not defined
#26
biona001
closed
11 months ago
7
RunTractor.py ERROR Phenotype ID must match with Hapdose file ID
#25
samreenzafer
closed
11 months ago
2
Query cohort imputed with TOPMed reference panel (Michigan server hg38 build)
#24
samreenzafer
closed
4 months ago
1
Possibility of outputting SNP effect variance in Tractor output
#23
nick338
closed
11 months ago
1
Version (number) of Tractor
#22
ZikunY
closed
1 year ago
1
Dependency on RFMIX Output Format
#21
kscott-1
closed
1 year ago
2
IndexError: list index out of range
#20
ChrisK1988
closed
1 year ago
6
Related samples
#19
Wanying-Zhu
closed
1 year ago
1
IndexError
#18
ZikunY
closed
1 year ago
2
Hail does only linear and not logistic regression?
#17
guidebortoli
closed
1 year ago
1
Does the pheno file accepts missing values for a variable/covariable?
#16
guidebortoli
closed
1 year ago
1
Error message in the tutorial
#15
ZikunY
closed
1 year ago
2
How were the painted karyograms made?
#14
Naughtoncolin
closed
1 year ago
2
NaN output
#13
spaul-genetics
closed
1 year ago
2
GWAS with genotype x phenotype interaction
#12
MrLocuace
closed
8 months ago
1
Cannot find example of phenotype file
#11
MrLocuace
closed
2 years ago
2
fix msp scan
#10
mike-w-wilson
closed
3 years ago
0
Add arg to zip output
#9
mike-w-wilson
closed
3 years ago
2
Switch from per chromosome to autosomes
#8
hidyverse
closed
2 years ago
2
Example Hail code for binary traits
#7
secastel
closed
2 years ago
6
Error in ExtractTracks.py Script
#6
EEPuckett
closed
3 years ago
1
Update ExtractTracts to single script with passed number of ancestries
#5
mike-w-wilson
closed
3 years ago
0
Fixed some typos, and modified code to write out header more efficiently
#2
sgagliano
closed
5 years ago
0
Typo on line 34 of ExtractTracts-Flags.py
#1
sgagliano
closed
3 years ago
1