GAPIT output explaination

Hello all, I need help to understand the GAPIT output file "Type 1 error plot", what information does it give? What do we understand about our analysis from it? Does it help to improve our Analysis?

Thanks

gapit gwas type-i error

• 1,366 views • link

updated 7.1 years ago by Biostar

• written 7.2 years ago by tauseef.kiani •

0 answers

No answers yet.

More posts like this

Extracting only soft/hard clipped reads from a bam file
written 3.9 years ago by jcn •

Hello all! I am working on some data but need a little bit of help with a bit of an unusual task. We are looking …
GAPIT error : invalid '(to - from)/by'
written 5.4 years ago by Inquisitive8995

Hi, I am using GAPIT to do association analysis. I am trying to use GLM and MLM models for the same. The program runs fine …
Chip-Seq macs2 peak calling
written 6.8 years ago by Molinia •

Hello Everyone, I have a tiny question about macs2, I'm not sure I've understand the different output it produces... For example what are peaks.narrowpeaks files …
Graphic outputs using GAPIT
written 6.9 years ago by baaliou52 •

Hi ! I have this error message whenever I try to perform a complete [GWAS analysis using GAPIT](https://www.maizegenetics.net/gapit). Who can help me about the possible …
QTCAT Quantitative Trait Cluster Association Test problem with reading SNP data
written 7.2 years ago by tauseef.kiani •

Hello everyone, I'm running a GWAS analysis. First I used GAPIT and wanted to use PCs as population control covariates. To determine the appropriate number …
WHAT input file IS needed for model FarmCPU in GAPIT
written 7.4 years ago by chiti.agarwal •

GAPIT manual does not say that we need numerical file for genotypes to do FARMcpu but farmCPU manual says we need numeric format. Which one …
Error in writing a file from R
written 8.5 years ago by vinayjrao

Hello, I have a list in R, which I need to write into a file. When I try running `write.table(data, file="molecules.txt")`, I get the following …
how to get the error rate of iso-seq data?
written 9.4 years ago by zzz550987425 •

how about the error rate of iso-seq data? what can we do to improve the analysis of it?
Exact FDR value of DEPICT software?
written 10.0 years ago by Jie Ping •

Hello, everyone! I use DEPICT([link here][1]) for tissue/cell type enrichment analysis. BUT the output file named "_tissueenrichment.txt" DOES show "YES/NO" of FDR column instead of …
statistical value meaning
written 10.4 years ago by raya.girish •

Hi all i need help in one silly question Can any one help me understand the meaning of p value? if we say **p value …