natsuhiko rasqual issues

natsuhiko / rasqual

Robust Allele Specific Quantification and quality controL

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issues

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Line 90 Code Error in zpaste.c - 'k' Should Be 'i'?

#62 luluZuo opened 1 month ago
0
All reads for filtered out in createASVCF for single end bam files

#61 xfanhuang opened 2 months ago
0
Problems with multiple definitions of certain header files during configuration during installation

#60 atw520 opened 3 months ago
0
Compiling requires `-fcommon` flag on GCC v10+

#59 austintwang opened 4 months ago
1
potential bug in pasteFiles

#58 xfanhuang opened 7 months ago
0
Library size factor from DESeq2 as Offset

#57 KRSBar opened 2 years ago
0
ASVCF version

#56 plbngl closed 2 years ago
1
Z-score or effect and standard error

#55 plbngl opened 2 years ago
4
Fixed broken link and a minor typo.

#54 eafyounian opened 2 years ago
0
fSNP not tested?

#53 plantformatics opened 2 years ago
0
Number of fSNP is 0 but lead QTL within peak

#52 Zepeng-Mu opened 2 years ago
0
Wrong number of fSNPs using helper scripts

#51 liesaweigert closed 2 years ago
7
Imputation quality score (IA)

#50 alperoglu closed 3 years ago
0
Expected distribution of Pi

#49 ccrobertson closed 3 years ago
2
Estimated computation time too long

#48 liesaweigert closed 3 years ago
1
Identical results for close SNP

#47 Zepeng-Mu closed 3 years ago
2
First row of RASQUAL output

#46 adamturner1 closed 3 years ago
5
createASVCF.sh with 10X Genomics single cell bams

#45 adamturner1 closed 2 years ago
5
Estimated computational time is too long ...

#44 lw157 closed 3 years ago
4
QQ plot from rasqual P-values

#43 plbngl closed 3 years ago
17
QTL Enrichment Analysis

#42 aileenlikexin opened 4 years ago
0
Permutations and RASQUAL results

#41 SaideepGona opened 4 years ago
1
ASVCF Memory Usage

#40 SaideepGona opened 4 years ago
6
Include other covariates

#39 plbngl opened 4 years ago
2
Do covariates need to be normalized?

#38 iamjli closed 4 years ago
1
Mandatory inputs

#37 js8hh opened 4 years ago
3
tutorial for using RASQUAL on ATAC-seq data to find ATAC-QTL

#36 wlwtan opened 4 years ago
1
Visualizing QTLs (coverage boxplot)

#35 wlwtan opened 4 years ago
1
MAF filtering with -a uses > rather than >=

#34 kwcurrin closed 4 years ago
1
How can reference allele bias be calculated per SNP

#33 kwcurrin opened 4 years ago
6
Correlated peaks not sharing QTLs

#32 kwcurrin closed 4 years ago
12
Direction of fragment count and allelic imbalance

#31 kwcurrin closed 4 years ago
6
Handling peaks with influential points

#30 kwcurrin closed 4 years ago
2
Number of test SNPs

#29 raehoonj closed 5 years ago
2
RASQUAL with biological replicates

#28 agolicz opened 5 years ago
3
Understanding Effect Sizes

#27 arielmadr opened 5 years ago
1
sample specific offsets

#26 gouthamatla closed 5 years ago
2
Minor allele frequency filtering

#25 kwcurrin closed 5 years ago
3
Output line without information

#24 liangyy closed 5 years ago
4
Different output on example run when sample size is increased by 1

#23 liangyy closed 5 years ago
2
Get p-value for each feature-variant test

#22 liangyy closed 5 years ago
7
Multiple comparisons correction

#21 arielmadr closed 5 years ago
5
Can we use non sequencing based inputs?

#20 bioinfograd opened 5 years ago
1
2707 caQTL in RASQUAL paper

#19 YaCui opened 5 years ago
12
if Indel can be used in VCF input now

#18 azyro opened 5 years ago
3
"nan" for squared correlation between prior and posterior genotypes (fSNPs)

#17 gouthamatla closed 5 years ago
2
Meta analysis of RASQUAL results from different datasets

#16 gouthamatla closed 5 years ago
3
condition specific eQTLs

#15 gouthamatla closed 5 years ago
2
Number of fSNPs greater that the specified with -m

#14 gouthamatla closed 5 years ago
2
Using -m and -l

#13 gouthamatla closed 6 years ago
4