Questions tagged [java]

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java error when running CIRI-full.jar Merge module

I have an issue running a module trying to detect circRNA from RNAseq data. The error is a java error and I have not knowledge of java so I don't understand the issues and googling hasn't helped. the ...
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26 views

Java Protein Comparison Visualisation

I have project where I am required to build a visual analytics tool into an existing Java project to visually compare and analyse protein sequences from SwissProt, GenBank, EMBL etc. (downloaded from ...
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2answers
127 views

Mapping statistics from bam file using bbtools and sambamba

Below are the statistics for RNA-seq mapped and unmapped paired-end reads to rice genome using reformat.sh from bbtools on bam files. It gives 77% mapped and 5% unmapped, what about the remaining 18% ...
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195 views

Java error when trying to run UBCG jar (java.lang.ClassNotFoundException)

I wanna install UBCG.JAR in ubuntu 18.04 but I cannot run the java File UBCG.JAR. when I type the code java -jar UBCG.JAR an error message appears. ...
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1answer
278 views

Is there a way to use BioLemmatizer from Python?

Lemmatization is one of the most important tasks for text normalization in natural language processing (NLP), i.e. using deep learning to understand text data. One of the good lemmatizers I found for ...
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570 views

GSEA - Gene Set Enrichment Analysis - in R studio

I have been trying to conduct a classic GSEA using the broad institute software and can not figure out how to compile it in R for the life of me. I am aware that there exists other packages in R that ...