resources
List of research resources developed by the Fukushima Lab
GitHub Repositories
kfuku52/genegalleon Charting evolutionary histories across genes and species
kfuku52/csubst Analyzing combinations of codon substitution histories
kfuku52/amalgkit RNA-seq data amalgamation for a large-scale evolutionary transcriptomics
kfuku52/msspack Build DDBJ MSS submission files from FASTA/GFF inputs
kfuku52/RADTE Divergence time estimation in the complex history of gene family evolution
kfuku52/cdskit Processing protein-coding DNA sequences in frame
kfuku52/nwkit Newick tree processing
kfuku52/averagers Estimating average temperatures from historical daily extremes
kfuku52/github-activity-chart Plot monthly GitHub commit counts as stacked bar charts by repository
kfuku52/kftools Miscellaneous Python utilities mainly for evolutionary genomics
kfuku52/rkftools R utilities for handling data in evolutionary biology
kfuku52/kfl1ou An independently maintained fork of l1ou for detecting evolutionary shifts and convergent regimes
mkrg01/genome_assembly_pipeline An integrated pipeline for eukaryotic genome assembly and gene annotation
mkrg01/permucn A tool to test associations between binary trait transitions and gene-family copy-number evolution from CAFE outputs
Scientific Name Quizzes
- Carnivorous Plant Scientific Name Quiz: A multiple-choice quiz that asks you to identify carnivorous plant scientific names from reusable iNaturalist photos.
Genomes
The viewers below use NCBI's official API to display representative scaffolds for each assembly.
Internal Resources
kflab: This repository serves as the main platform for coordinating activities in the Kenji Fukushima Lab. It includes more than code: lab supply logistics, experimental-design discussions, and research-progress updates. New members should create a GitHub account and request an invitation from Kenji Fukushima.
Related Websites
NIG Badminton Club
This is the website of the NIG Badminton Club, managed by Kenji Fukushima in his role as faculty advisor. It provides practice schedules, attendance information, and details on how to join.