guyleonard/sagawe guyleonard/sagawe

  • Stars
    star
    5
  • Rank 2,861,937 (Top 57 %)
  • Language
    Shell
  • License
    GNU General Publi...
  • Created over 8 years ago
  • Updated about 5 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
guyleonard/sagawe
github

guyleonard

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

βšͺ ➑️ πŸ” ℹ️ A suggested workflow, and accompanying scripts, to assemble Single Amplified Genomes (SAGs) from MDA derived Hi/MiSeq (Overlapped) Paired-End Illumina Libraries.

More Repositories

1

get_jgi_genomes

A quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.
Perl
21
star
2

jsPhyloSVG

JavaScript
19
star
3

genomics_adventure

Workshop on Genomics - Genomics Adventure
Shell
17
star
4

taxdump_edit

🌱 ➑️ 🌳 Add new taxa or taxonomic groups to the NCBI Taxdump files
Perl
15
star
5

orthomcl_tools

A couple of tools I find indispensable for post orthomcl down-stream analysis.
Perl
11
star
6

gene_prediction_pipeline

Gene Prediction using MAKER, CEGMA, SNAP, GENEMARK & AUGUSTUS
Shell
8
star
7

busco_hmms_for_anvio

Making BUSCO HMMs useable in Anvi'o.
Shell
4
star
8

refgen

A time-saving tool to change the 'defline' of FASTA files for a range of phylogenetic programs e.g. ClustalX, MrBayes, PhyML
Perl
4
star
9

get_ensembl_genomes

A quick and easy way to download the genomes/predicted proteins of taxa available from ENSEMBL Genomes
Shell
3
star
10

orthagogue

Automatically exported from code.google.com/p/orthagogue
C++
3
star
11

random_scripts

A collection of random scripts I have made over the years, barely any documentation though. Enjoy, be careful!
Perl
2
star
12

fdfBLAST

Perl
2
star
13

evomics_2017

Creating the AMI for the evomics.org Workshops
Perl
2
star
14

genome_crossovers

Which genomes are where in the big DBs?
R
1
star
15

blastocladiella

The genome of Blastocladiella emersonii
HTML
1
star
16

evomics_2019

Creating the Virtual Machine (AMI) for the evomics.org Workshops
Perl
1
star
17

treenamer

Perl
1
star
18

Reddit-Perl-API

A simple Perl API to query Reddit
Perl
1
star
19

marine_fungi

Accompanying files for Identification of 71 marine fungal lineages using diversity tag sequencing 2015, In prep.
1
star
20

taxa_autocorrect

A tool to 'automagically' italicise taxon names, compiled from 839 taxa sampled from NCBI, DOE JGI and BROAD. Currently MS Word only
1
star
21

easyRAx

The script aims to make execution of RAxML a little easier by use of simple command-line menus and some user input.
Perl
1
star
22

orchard

🌱 πŸ“‹ ➑️ 🎱 ➑️ 🌴 🌲 🌳 - A quick phylogenetic tree building pipeline!
Perl
1
star
23

hgt_oomycetes

Horizontal gene transfer (HGT) or lateral gene transfer (LGT) involves the transmission of genetic material between distinct evolutionary lineages and can be an important source of biological innovation. For instance, the acquisition of foreign genes can allow recipient organisms to adapt to new lifestyles or to exploit a novel ecological niche, such as a host environment. HGT has long been recognised as an important factor contributing to the evolution of prokaryotic lineages especially in connection to the evolution of pathogencity [1,2]. However, it is becoming increasingly apparent that HGT has also played a role in the evolution of pathogenic traits in eukaryotes [3,4]. Here, we consider how HGT has contributed to genome evolution in the oomycetes.
1
star