DeepASmRNA > download

File: example_data.tar.gz including the example input and output file of our method.

File: human_GRCh38.p13.genome.fa.gz Genome sequence. Download from GENCODE website
File: human_gencode.v37.annotation.gff3.gz gene annotation file in GFF3. Download from GENCODE website
File: human_gencode.v37.annotation.gtf.gz gene annotation file in GTF. Download from GENCODE website
File: human_gencode.v37.transcripts.fa.gz mRNA sequence. Download from GENCODE website
File: human_gencode.v37.as.strict.ioe AS events obtained by SUPPA2.

File: Araport11_genomic.fna.gz Genome sequence. Download from the website
File: Araport11_GFF3_genes_transposons.201606.gtf.gz gene annotation file in GTF. Download from the website
File: Araport11_GFF3_genes_transposons.201606.gff3.gz Genome sequence. Download from the website
File: Araport11_transcripts.fa.gz mRNA sequence. Download from the website
File: Araport11.as.strict.ioe AS events obtained by SUPPA2.

SUPPA2 a flexible and powerful tool to study splicing at the transcript isoform. Download from the github website
BLASTN for pairwise sequence alignment. Download from the NCBI website
PASA a eukaryotic genome annotation tool that identifies and classifies all splicing variations supported by the transcript alignments. Download from the github website
TensorFlow an end-to-end open source platform for machine learning. Download from the website
The PacBio’s SMRT Analysis pipeline a suite of analytical applications developed and optimized to bring to life your PacBio long-read sequencing data.. Download from the website