annotate gene symbol → proposed isoform groups (Ensembl, by 3' terminal exon) identify config → are the groups distinguishable by short reads? (k-mer uniqueness) extract Salmon quant.sf → per-donor ...
print STDERR "\n\n\tNOTE - longest transcript isn't always the best transcript!... consider filtering based on relative expression support ... \n\n"; ...
New methods for analyzing RNA-Seq data enable de novo reconstruction of the transcriptome. There are also notable differences in the details of the algorithms. For example, Cufflinks uses a rigorous ...
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Mdx mice lack Dp427 but still express shorter isoforms. Despite their widespread use in Duchenne muscular dystrophy (DMD) research, they exhibit a relatively mild phenotype that differs from the ...
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