... do NOT present in gff/gtf file. Examples of valid IDs is showed as bellowedGuess FileType is:GTFtranscript:AT1G03987.1transcript:AT1G01020.6transcript:AT1G01010.1transcript:AT1G01020.3transcript:AT1G01020.2transcript:AT1G01020.5transcript:AT1G01020.4transcript:AT1G01020.1transcr...
...file.gz|"
输出文件句柄：
open OUT, "| gzip > outfile.gz" or die $!;
也可以用包：PerlIO::gzip
use PerlIO::gzip; #Perl IO
open FQ,"<:gzip",file1.gz||die"$!";
open FN,">:gzip",file2.gz||die"$!";
合并gz文件
cat file1.gz file2.gz >file3.gz
更多perl...
...You did not define a karyotype file. Are you sure your configuration file is well formed?
chr.info文件如图所示，全在Linux环境下用脚本整理的，是我哪里搞错了？还是数目太多？（用的scaffold，MCScanX也是，全部600个scaffold放到配置文件就报错，只放...
...#ff00ffMARGIN,0LABEL_ROTATION,0DATA#the following fields are possible for each node:#ID,label,position,color,style,size_factor,rotation9606,Homo sapiens,-1,#ff0000,bold,1.5,454932,Eukaryota,-1,#000000,italic,2,90160,Bacteria,-1,#0000ff,bold,4,902234,Archaea,-1,#0000ff,normal,3,-45727,Somethi...
...gle-copy genes in any orthogroup
Inferring multiple sequence alignments for species tree
-------------------------------------------------------
2025-06-07 14:57:14 : Done 0 of 969
2025-06-07 15:01:56 : Done 100 of 969
2025-06-07 15:06:15 : Done 200 of 969
Traceback (most recent call last):
...
...为1，依旧提示报错：Failed to create bus connection: No such file or directory
--> No gene can be mapped....
--> Expected input gene ID: LOC105382119,LOC105392385,LOC105383189,LOC105384039,LOC105384627,LOC105384151
--> return NULL...
Error in barplot.default(kegg, showCategory =...
...unction (classes, fdef, mtable) :
unable to find an inherited method for function ‘dotplot’ for signature ‘"NULL"’
Calls: dotplot -> <Anonymous>
Execution halted
查询问题时候发现，在上一节内容中，练习生成的normal_vs_tumor.DEG.final.tsv 文件与demo...
...y$gff=$ARGV[0];my%gene=();my%gene_region=();my%mRNA2Gene=();open IN,"$gff" or die "$!";open OUT ,">$ARGV[1]" or die "$!";print OUT "#mRNA_ID\tgene_ID\tchr\tstart\tend\tstrand\n";while(<IN>){chomp;next if (/^#/);my@tmp=split(/\t/); if($tmp[2] =~/^gene/){my($id)=($tmp[8]=~/ID=([^;]+)/);$gene{...
...Check if there are duplicated cases
Warning: There are more than one file for the same case. Please verify query results. You can use the command View(getResults(query)) in rstudio
ooo Check if there results for the query
-------------------
o Preparing output
-------------------
Downloading d...