tolkit Goto Github PK
Name: tolkit
Type: Organization
Bio: Tree of Life Kit
tolkit's Projects
a-telomeric-repeat-database
A mass non-curated database of potential telomeric repeat sequences across the eukaryotic tree of life.
aa2nucaln
Amino acid to nucleotide alignment, as per this paper: https://academic.oup.com/bioinformatics/article/31/11/1836/2365396
all-sequencing-status
A statement of the sequencing status of each species run through DToL.
apple_day
Project progression & code for apple day 2021!
busco_karyotyping
Mapping BUSCO genes from a reference genome to a new assembly to quickly infer simple rearrangement events
cgr
Chaos Game Representation of DNA sequences
containerize-conda
Turn an existing conda environment into a Singularity container
fasta_window_stats
Sequence patterns on fasta files.
fasta_windows
A Rust implementation of sliding window stats over fastas.
fpma
Fast Plant Mito Annotation.
fppa
Fast Plant Plastid Annotation
fw_group
Aggregate fasta_windows output.
fw_plot
Create simple plots of fasta_windows output.
gfatk
A plant organellar Graphical Fragment Assembly toolkit
gff-rename
Replace sequence_IDs in gff3 based on given genome.fasta
gff-stats
Calculate GC4 and GC3 from a gff and a fasta.
haplotype-windows
Calculate SNP density in sliding windows over a VCF.
mblaxter_oscheius_genomes_sequencing
Draft genome assemblies and QC data
mmft
My Minimal Fasta Toolkit
nemadsq
A repository containing pipelines for nematode genome assembly, decontamination, scaffolding, and QC
nf-workshop
Nextflow workshop at the Sanger Institute
otipu_chrom_assem
Scripts and files associated with the chromosomal assembly of O. tipulae manuscript
plant-organellome-assembly
Automation of plant organelle assemblies from raw reads.
samclip
Filter SAM file for soft and hard clipped alignments
telomeric-identifier
Identify and find telomeres, or telomeric repeats in a genome.
tolkein
Tree of Life Kit of Evolutionary Informatics Novelties
vcf2msa
Given a VCF and a reference genome, create a multiple sequence alignment of the samples.
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