MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
...sp;Mining Algorithm for GenetIc Controllers (MAGIC),...nrichment of TFs and cofactors in gene bodies and flanking regions i...ori binary classification of genes as targets or non-targets. W...eurons divided by Immediate Early Gene expression levels. In summary, MAGIC i...1300 days ago
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gggenomes: A grammar of graphics for comparative genomics
gggenomes is a versatile graphics package for comparative genomics. It extends the popular R visualization packageggplot2 by adding dedicated plot functions for genes, syntenic regions, etc. and verbs to manipulate the plot to, for example, quickly zoom in into gene neighborhoods.1233 days ago
1206 days ago
RNA-Seq differential expression work flow using DESeq2
One of the aim of RNAseq data analysis is the detection of differentially expressed genes. The package DESeq2 provides methods to test for differential expression analysis.1030 days ago
WAAFLE: a Workflow to Annotate Assemblies and Find LGT Events.
Lateral gene transfer (LGT) is an important mechanism for genome diversification in microbial communities, including the human microbiome. While methods exist to identify...999 days ago
RNA-seq workflow: gene-level exploratory analysis and differential expression
Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor...the reference transcripts, and prepare gene-level count datasets for down...p between samples, perform differential gene expression analysis, and visually explor...983 days ago
Fix rewritable error of ELGG !
...bsp;module uses a rule-based rewriting engine, based on a PCRE regular-expression parser, to rewrite requ...can be invoked in httpd.conf or in .htaccess. The path generated by a rewrite rule can include...946 days ago
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