workflows/isoseq_assembly/combined_mapping_and_collapse.sh

...oseq_assembly/combined_mapping_and_collapse_old_genome.sh

...eq_assembly/comparison_isoseq_polishing_effectiveness.Rmd

workflows/isoseq_assembly/isoseq3_pipeline.sh

workflows/isoseq_assembly/readme.txt

workflows/isoseq_assembly/run_sqanti.sh

workflows/merge_annotation/Braker2_subsets_and_merge.Rmd

workflows/merge_annotation/readme.txt

workflows/merge_annotation/reannotation_correction.Rmd

workflows/other_inferences/infer_coverage_along_genome.sh

...lows/other_inferences/mapping_bias_inference_analysis.Rmd

workflows/other_inferences/plastid_to_genome_mapping.sh

workflows/other_inferences/readme.txt

workflows/readme.txt

workflows/repeat_masking/analyse_repetitive_elements.Rmd

workflows/repeat_masking/readme.txt

workflows/repeat_masking/run_repeatmasker.sh

workflows/repeat_masking/run_repeatmodeler.sh