1/1
9 files

H. cornu classifier-identified bicycle genes expression scripts

software
posted on 09.03.2022, 19:54 authored by David Stern, Clair HanClair Han
Code for generating the H. cornu bicycle genes characterizations and expression analysis from publication "Gene structure-based homology search identifies highly divergent putative effector gene family", Stern and Han, BioRxiv https://doi.org/10.1101/2021.09.24.461719.

H. cornu bicycle genes characterization:
Hcor_cluster_analysis_v5.5.6.Rmd
Inputs: Augustus.updated_w_annots.3ix21_final.pep.fa
gene_cluster2.names
Hcor_bicycle_classifier_0.72cutoff_FP_transcripts_v5.5.6.txt
Generates figures 2A-C, 3 all panels

H. cornu bicycle genes expression:
Hcor_SG_DE_analysis.5.classifier_CH_7ix21.Rmd
Hcor_classifier_RNAseq.sh
Inputs: Hcor_bicycle_classifier_0.72cutoff_v5.5.6_cluster1_gene_names.txt
Hcor_bicycle_classifier_0.72cutoff_v5.5.6_cluster1_minus_g17794.t1_gene_names.txt
Hcor_bicycle_classifier_0.72cutoff_v5.5.6_cluster2_gene_names.txt
Generates figures 2E-G, 6C

Please contact Clair Han at hanc@janelia.hhmi.org with questions.

See related materials in collection at https://doi.org/10.25378/janelia.c.5778905.

History