找到约 15 条结果

问题 输入绘制circos图时出现错误

...Can't open perl script "/home/manager/share/scipt/circos.pl": No such file or directory，哪位老师能知道解决的方法？

文章 python 读取kegg绘图配置文件中的kgml文件内容

...m.documentElementff=open(sys.argv[2],"w")if root.nodeName=='pathway':    for i in root.childNodes:        if i.nodeType==1:            if i.nodeName=='entry':                link=i.getAttribute('link')                 #print link+'\n'             for g in i.childNod...

文章 从gff文件当中提取对应转录本ID的基因结构信息用于GSDS绘制结构图脚本更新

...; my @a = split /\t/, $_; next if $a[2]=~/exon/i; if ($a[2] =~/^mRNA$/i or $a[2] =~/^transcript$/i ) { ($id1) = ($a[8] =~ m/ID=([^;]*)/); }elsif ( $a[2] =~/^CDS$/i or $a[2] =~/utr/i ) { ($id1) = ($a[8] =~ m/Parent=([^;]*)/); }else{ next; } if ( exists $gffs{$id1} ) { print OUT "$...

问题 在做GWAS关联分析，利用gapit软件报错

Error in file(filename, "r", encoding = encoding) :    cannot open the connection Calls: source -> file In addition: Warning message: In file(filename, "r", encoding = encoding) :   cannot open file '/biosoft/GAPIT3.0/gapit_functions.txt': No such file or directory Execution halted

问题 老师，您好，我按照课程安装doekcr，下载了群体遗传学的镜像，在启动镜像的时候总是显示错误，请问老师该如何解决呢？

...was:latest 总是显示Error response from daemon：failed to create task for container: failed to create shim task: OCI runtime create failed: runc create failed: unable to start container process: error during container init: error setting cgroup config for procHooks process: load program: perm...

问题 如何解决meme-v4.12.0软件下载

/biosoft/meme-v4.12.0/bin/meme pep_id-seq-F.fa -protein -oc u-box_motif -nostatus maxsize 600000 -mod anr -n motifs 10 -minw 6 maxw 50 zsh: no such file or directory: /biosoft/meme-v4.12.0/bin/meme

问题 如何修改perl脚本从cds文件中提取上游序列呢？（有些cds中的scaffold可能不足1500）

...le => "$ARGV[0]",                                   -format => 'Fasta'); $out = Bio::SeqIO -> new(-file => ">$ARGV[2]",                                   -format => 'Fasta'); my %keep=() ; open IN,"$ARGV[0]" or die "$!"; my%ref=(); while ( m...

文章 SNP 过滤标准保证数据质量及参考文献：

...可以使用官方推荐的hard-filtering： https://gatk.broadinstitute.org/hc/en-us/articles/360035532412-Can-t-use-VQSR-on-non-model-organism-or-small-dataset GATK过滤命令行： https://gatk.broadinstitute.org/hc/en-us/articles/360035531112--How-to-Filter-variants-either-with-VQSR-or-by-...

问题 安装github上的包报错：

...HUB_PAT. Use `gitcreds::gitcreds_set()` and unset GITHUB_PAT in .Renviron (or elsewhere) if you want to use the more secure git credential store instead. Error: Failed to install 'unknown package' from GitHub:   HTTP error 401.   Bad credentials   Rate limit remaining: 57/60   Rate limit ...

问题 请问GCTA运行报错，打不开软件怎么回事呢？

[root@iZZ software1]# ls gcta_1.94.0beta  gcta_1.94.0beta.zip [root@iZZ software1]# cd /software/gcta_1.94.0beta -bash: cd: /software/gcta_1.94.0beta: No such file or directory

文章 基因家族分析课程更新2.0

...., Zhang, H., Liu, G., Wang, X. and Dai, L. (2012) ParaAT: A parallel tool for constructing multiple protein-coding DNA alignments, Biochem Biophys Res Commun, 419(4):779-7 trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses.Salvador Capella-Gutierrez; Jose M. Silla...

问题 FileZilla Client出错

...状态:已登录 状态:读取目录列表... 命令:PWD 响应:257 "/" is the current directory 命令:TYPE I 响应:200 Type set to I 命令:PASV 响应:227 Entering Passive Mode (130,14,29,30,195,87). 命令:MLSD 响应:550 /: Permission denied 错误:读取目录列表失败

问题 tassel计算PCA

ERROR net.maizegenetics.plugindef.AbstractPlugin - Index 436980866 out of bounds for length 436980866

问题 tassel 计算PCA

 ERROR net.maizegenetics.plugindef.AbstractPlugin - Index 436980866 out of bounds for length 436980866

问题 用GATK call 变异的时候，分染色体还是很慢，能不能增加线程或别的改进的方法。

我用了如下命令： for i in $(cat $workdir/data/data.txt) ; do for Chr in Chr1 Chr2 Chr3 Chr4 Chr5 Chr6 Chr7 Chr8 Chr9 Chr10 Chr11 Chr12; do   echo "gatk --java-options "-Xmx100g" HaplotypeCaller \     -R $REF \     -I $workdir/3.map/result/${i}.sorted.dedup.bam \     -O ${i}....