hyphaltip

genome-scripts

Genome Scripts used in fungal comparative genomics

pubmed_to_COA

Write a Collaborating Authors table suitable for USDA/NSF COA/COI files

uniprot_tools

Some tools manipulating uniprot/sprot related data

alphafold

Alphafold Collaboratory Notebooks

ARBitR

ARBitR: Assembly Refinement with Barcode-identity-tagged Reads

Autometa

Autometa: Automated Extraction of Genomes from Shotgun Metagenomes

canu

A single molecule sequence assembler for genomes large and small.

circlator

A tool to circularize genome assemblies

clinker

Gene cluster comparison figure generator

COVID-GC-content

DRAM_hacks

Hacks to get the DRAM sqlite DB to build

EukCC

Tool to estimate genome quality of microbial eukaryotes

EukDetect

EukRep

Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets

FACET

Fungal Alignment Culling and Evaluation Tool

fraser-lab.github.io

Fraser Lab website

gdrive

Google Drive CLI Client

got_pubmed

Retrieve pubmed IDs for resources

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

mosdepth

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

NSF_Funding_Trends

Process NSF fastlane XML files and summarize funding trend,duration,per-year

Pangloss

Pangenome analysis of eukaryotes.

PASApipeline

PASA software

pb-assembly

PacBio Assembly Tool Suite: Reads in ⇨ Assembly out

PIRATE

A toolbox for pangenome analysis and threshold evaluation.

PopGenomics_Aureobasidium_pullulans

Aureobasidium pullulans population genomics from global samples

project_genotype2newref

Project a VCF Genotype into a New Reference genome

RNASeq_test

Test

RNASeq_test_run

This is a description

snakemake_rnaseq_STAR

RNA-seq workflow using STAR and DESeq2