Cuffmerge

Benchmark and compare bioinformatics tools for a given analysis task using published benchmark data (accuracy, runtime, memory), PrecisionFDA and CAMI challenge results, bc7score community metrics, an

1 shared topic • 2 shared operations

Cufflinks — RNA-seq transcript assembly, quantification, and differential expression suite. Assembles aligned reads into transcripts (cufflinks), performs differential expression analysis at transcrip

1 shared topic • 2 shared operations

gffcompare -- Tool for comparing, merging, and annotating RNA-seq transcript assemblies against a reference annotation. Classifies each assembled transcript with a class code (=, c, j, u, x, i, p, r,

1 shared topic • 2 shared operations

gffread -- GFF/GTF utility for filtering, converting, and extracting sequences from genome annotation files. Converts between GFF3 and GTF formats, extracts transcript (FASTA) and protein sequences fr

1 shared topic • 2 shared operations

MAKER — portable genome annotation pipeline that integrates ab initio gene predictors (SNAP, Augustus, GeneMark), protein and EST evidence alignment, and repeat masking to produce GFF3 gene models wit

1 shared topic • 2 shared operations