******************************************************************* * Genome-wide Complex Trait Analysis (GCTA) * version 1.26.0 * (C) 2010-2016, The University of Queensland * MIT License * Please report bugs to: Jian Yang <jian.yang@uq.edu.au> ******************************************************************* Analysis started: Thu Dec 20 15:59:50 2018
Note: This is a multi-thread program. You could specify the number of threads by the --thread-num option to speed up the computation if there are multiple processors in your machine.
Reading PLINK FAM file from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.fam]. 600 individuals to be included from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.fam]. Reading PLINK BIM file from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bim]. 19638 SNPs to be included from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bim]. Reading PLINK BED file from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bed] in SNP-major format ... Genotype data for 600 individuals and 19638 SNPs to be included from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bed].
Error: this option is for the autosomal SNPs only. Please check the option --autosome.
Analysis finished: Thu Dec 20 15:59:51 2018 Computational time: 0:0:1
gcta64 --make-grm --out snp.gcta --bfile lecture09cc.maf0.05.hwe6.miss0.2.ind0.2 --autosome-num 22
出现错误
*******************************************************************
* Genome-wide Complex Trait Analysis (GCTA)
* version 1.26.0
* (C) 2010-2016, The University of Queensland
* MIT License
* Please report bugs to: Jian Yang <jian.yang@uq.edu.au>
*******************************************************************
Analysis started: Thu Dec 20 15:59:50 2018
Options:
--make-grm
--out snp.gcta
--bfile lecture09cc.maf0.05.hwe6.miss0.2.ind0.2
--autosome-num 22
Note: This is a multi-thread program. You could specify the number of threads by the --thread-num option to speed up the computation if there are multiple processors in your machine.
Reading PLINK FAM file from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.fam].
600 individuals to be included from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.fam].
Reading PLINK BIM file from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bim].
19638 SNPs to be included from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bim].
Reading PLINK BED file from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bed] in SNP-major format ...
Genotype data for 600 individuals and 19638 SNPs to be included from [lecture09cc.maf0.05.hwe6.miss0.2.ind0.2.bed].
Error: this option is for the autosomal SNPs only. Please check the option --autosome.
Analysis finished: Thu Dec 20 15:59:51 2018
Computational time: 0:0:1
如何解决????
用的数据是老师提供的
谢谢老师
Fatal Error : Expected a Chromosome in the form of an integer from 0-26 in file [fastlmm_in.tped] near line 277594:1. Found [91]
老师,请问这个错误是什么意思?
plink --bfile lecture09.case.control --maf 0.05 --hwe 1e-6 --geno 0.2 --mind 0.2 --make-bed --out lecture09cc.maf0.05.hwe6.miss0.2.ind0.2
plink: unknown option "--bfile"
plink: unknown option "--maf"
这个是怎么回事呢?
请问case-control的ped 和map数据是从哪里下载的呢?
您好,请问tassel-5-standalone/run_pipeline.pl -SortGenotypeFilePlugin 是给那一行样品,从小到大排序吗?
老师您好!我用自己的数据在表型+Q+基因型数据的皮时候合并不了
老师 ,我做的全基因组关联分析,基因型文件vcf大约有10个G,在tassel中打不开 ,请问有什么解决办法吗?
Error in source("http://www.zzlab.net/GAPIT/gapit_functions.txt") :
http://www.zzlab.net/GAPIT/gapit_functions.txt:282:0: unexpected end of input
280:
281: GWAS=cbind(GM,mySUPERFaST$ps,mySUPERFaST
^
有解决方法吗