Gabaldon lab

redundans

Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

perSVade

perSVade: personalized Structural Variation detection

haplotypo

This is the Haplotypo repository

jloh

A tool to extract LOH blocks from VCF, BAM and FASTA data

EvolClust

Evolcust retrieves groups of genes that appear clustered together in groups of species

crossmapper

Crossmapper software

lncRNAs

script of lncRNA project

Candida_Selection_DrugResistance

karyon

This is the Karyon Pipeline

longHam

LongHam assembly pipeline

ngs_public

NGS scripts

nextPARS

bioconda-recipes

Conda recipes for the bioconda channel.

C_albicans_with_albumin

Candida_nextPARS

crosslink-by-sequence

A tool to crosslink proteins between two proteomes from different sources using their sequences, aiming to avoid the inaccuracies associated with source-specific IDs.

ete

Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.

FastaIndex

FastA indexing and sequence retrival.

ghost_transfers

hgt_detection

how2code

Technical seminar regarding good practices in writing code and documentation

intermine

Stable version of intermine used by candidamine and modified by us

last

"Fork" of LAST (https://gitlab.com/mcfrith/last) v1418

last_v800

LAST finds similar regions between sequences.

lung_microbiome_16S

phylomedb_speciestree

pyScaf

Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.

Q-PHAST

reconciler

structural_phylome

Compute a sequence and structure based phylome based on uniprot proteomes.