User: zoukai3412085

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Posts by zoukai3412085

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Comment: C: I use update_blastdb.pl to update nr database, and problem come out
... yes, I use conda install to install blast at the root account. but I have not creat new conda environment, and install it at the defult environment, always like that. ...
written 11 months ago by zoukai34120850
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I use update_blastdb.pl to update nr database, and problem come out
... **when I use update_blastdb.pl to update the latest version of nr database, it always reports an error:** # nr.69.tar.gz is up to date. nr.70.tar.gz is up to date. nr.71.tar.gz is up to date. nr.72.tar.gz is up to date. nr.73.tar.gz is up to date. Use of uninitialized value in numeric lt (< ...
blast written 11 months ago by zoukai34120850
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Tophat Reporting output tracks, run out of memory, how to solve?
... running log as follow: [2017-11-27 14:14:14] Beginning TopHat run (v2.1.1) ----------------------------------------------- [2017-11-27 14:14:14] Checking for Bowtie Bowtie version: 2.3.3.1 [2017-11-27 14:14:14] Checking for Bowtie index files (transcriptome).. [2017-11- ...
tophat rna-seq written 2.9 years ago by zoukai34120850 • updated 2.9 years ago by WouterDeCoster44k
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Reference annotation file contains only transcript and CDS information, how to analyze the different expression of genes?
... My reference annotation gff file, which was downloaded from gigaDB(http://gigadb.org/dataset/100209), contains only transcript ID and CDS information like this: [root@xueduanliu Ginkgo_RNA_sequencing_analysis]# cat Ginkgo_biloba.gff | head -n 10 C24882126 Cufflinks mRNA 33 1196 . ...
cds exon rna-seq written 2.9 years ago by zoukai34120850

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