CRABS CLAW-independent floral nectary development in Penstemon barbatus

Data and Scripts for the "CRABS CLAW-independent floral nectary development in Penstemon barbatus" manuscript. Scripts: fastp.sh - filter and quality trim reads using fastp on all samples 1ribo_detect.sh - detect and filter rRNA. Example script for 1 sample. gffread.sh - convert P. barbatus genome annotation GFF to a GTF for use in STAR star_initalize.sh - initalize STAR for the P. barbatus genome 1star_ribo.sh - Example script for aligning reads from 1 sample to the genome. htseq_ribo.sh - counting reads for each sample using HTseq deseq2_code.R - R script for running the transcriptome tissue comparisons in DEseq2 with the output from HTseq. deseq_PCA.R - R script for the generation of the PCA plots for the samples. To be used in conjuction with the deseq2_code.R script. 20230321_topGO_script.R - R script for Gene Ontology analyses in topGO. area_perimeter_cor.R - R script for vasculature ANOVAs. Data: Genome files 4_LG_2022_maker.all.maker.proteins.fasta - protein sequences for all genes in the P. barbatus genome in Wessinger et al. 2023 4_LG_2022_maker.all.maker.noseq.gff - GFF file for all genes in the P. barbatus genome in Wessinger et al. 2023 HTseq output trimmed to only the counts (excludes other log information) - trimmed_htseq_35404342.txt DEseq2 output Early stage barb_early_nect_nonect_FDR0.01_LFC0.csv barb_early_nect_nonect_FDR0.01_LFC0.annotated.csv Late stage barb_late_nect_nonect_FDR0.01_LFC0.csv barb_late_nect_nonect_FDR0.01_LFC0.annotated.csv Nectar removal barb_stage5_6_FDR0.01_LFC0.csv barb_stage5_6_FDR0.01_LFC0.annotated.csv Orthofinder output - N0.tsv Vasculature raw data - 20231025_bud_measurements_pbarb.csv