更加方便的安装方法用Bioconda安装好cd-hit repeatmasker, 然后下载LTR_retriever: conda create -n LTR_retriever source activate LTR_retriever conda install -c conda-forge perl perl-text-soundex conda install -c bioconda cd-hit conda install -c bioconda/label/cf201901 repeatmasker git clone https://g...
一:安装 可以conda安装或自己手动安装 $conda create -n LTR_retriever $conda activate LTR_retriever $conda install -y -c conda-forge perl perl-text-soundex $conda install -y -c bioconda cd-hit repeatmasker $git clone https://github.com/oushujun/LTR_retriever.git $./LTR_retriever/LTR_retrieve...
conda env create -f /your_path_to/LTR_retriever/LTR_retriever.yml Alternatively, you may use the conda recipe, but due to the large number of dependencies, conda solve may take hours... Unfortunately, the conda recipe currently could not be installed properly withmamba. ...
Quick installation using conda Step by step using conda Standard installation Inputs Outputs Usage Citations Introduction LTR_retriever is a command line program (in Perl) for accurate identification of LTR retrotransposons (LTR-RTs) from outputs of LTRharvest, LTR_FINDER, MGEScan 3.0.0, LTR_STRU...
If this PR adds or updates a recipe, use "Add" or "Update" appropriately as the first word in its title. New recipes not directly relevant to the biological sciences need to be submitted to theconda-forge channelinstead of Bioconda. ...
conda install-c bioconda/label/cf201901 repeatmasker git clone https://github.com/oushujun/LTR_retriever.git./LTR_retriever/LTR_retriever-h 此外你还需要额外安装LTRharvest,LTR_FINDER和MGEScan_LTR。 LTRharverst:http://genometools.org/ LTR_FINDER:https://github.com/xzhub/LTR_Finder ...
同样用conda安装了LTR_FINDER;按照教程完成了第一步的分析。 但是第二步时(LTR_retriever -threads 4 -genome Athaliana.fa -infinder Athaliana.finder.scn),报错,原因为:Dependency checking: Error: The RMblast engine is not installed in RepeatMasker!
conda env create -f /your_path_to/LTR_retriever/LTR_retriever.yml Alternatively, you may use the conda recipe, but due to the large number of dependencies, conda solve may take hours... Unfortunately, the conda recipe currently could not be installed properly withmamba. ...