lncRNA

lncRNA scripts for Shea et al. 2019 Long noncoding RNAs in Brassica rapa L. following vernalization. Scientific Reports doi:10.1038/s41598-019-45650-w

If you find any of this useful, please consider citing our paper:

https://www.nature.com/articles/s41598-019-45650-w

Name		Name	Last commit message	Last commit date
Latest commit History 9 Commits
LICENSE		LICENSE
README.md		README.md
analyze_genblast.ipynb		analyze_genblast.ipynb
analyze_intergenic_transfrags.ipynb		analyze_intergenic_transfrags.ipynb
analyze_transfrags.ipynb		analyze_transfrags.ipynb
blastx_swissprot.sh		blastx_swissprot.sh
compare_linc_cpc.ipynb		compare_linc_cpc.ipynb
compute_distance.ipynb		compute_distance.ipynb
exon_count_analysis.ipynb		exon_count_analysis.ipynb
extractTargetTranscripts.py		extractTargetTranscripts.py
find_2kb_window.sh		find_2kb_window.sh
find_closest.sh		find_closest.sh
find_overlaps.sh		find_overlaps.sh
get_FPKM_data.ipynb		get_FPKM_data.ipynb
get_regions.sh		get_regions.sh
get_strand_specific.sh		get_strand_specific.sh
intersect.sh		intersect.sh
kmeans_cluster_genes.ipynb		kmeans_cluster_genes.ipynb
makeBED.sh		makeBED.sh
makeGTFs.sh		makeGTFs.sh
make_FPKM_files.ipynb		make_FPKM_files.ipynb
make_excel_blastn_results.ipynb		make_excel_blastn_results.ipynb
make_lncRNA_fastas.ipynb		make_lncRNA_fastas.ipynb
make_putative_genes_fasta.ipynb		make_putative_genes_fasta.ipynb
make_total_genes.ipynb		make_total_genes.ipynb
make_transcripts.sh		make_transcripts.sh
matchNAT_FPKM.sh		matchNAT_FPKM.sh
matchgene.sh		matchgene.sh
matchgene_FPKM.sh		matchgene_FPKM.sh
matchincRNA_FPKM.sh		matchincRNA_FPKM.sh
pipeline.txt		pipeline.txt
run_blastn.sh		run_blastn.sh

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