SAMMate 2.5

SAMMate, a Graphical User Interface (GUI) RNA-seq analysis pipeline, allows biomedical researchers to quickly process SAM/BAM files and is compatible with both single-end and paired-end sequencing technologies. SAMMate automates some of more standard procedures in RNA-seq analysis.<br /><br />Features:<br /><br /> * Estimating genomic feature abundance at isoform level<br /> * Calculating genomic feature abundance score at gene level<br /> * Generating signal map for peak detection<br /> * Generating wiggle files for visualization<br /><br /> * Generating alignment report<br /> * Customize gene annotation file<br /><br /> * Customize chromosome name in output file<br /> * SAM/BAM format conversion<br /> * SAM/BAM file sorting<br /> * Output read counts for detecting differentially expressed genes, e.g. using edgeR

Requirements:	No special requirements
Platforms:	Mac, Mac OSX
Keyword:	Alignment,  Annotation,  Calculating,  Chromosome,  Customize,  Detecting,  Detection,  Differentially,  Edger,  Expressed,  Generating,  Genes,  Level,  Output,  Report,  Score,  Signal,  Visualization,  Wiggle
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