eead-csic-compbio Goto Github PK

allopolyploids

PhyloSD: Phylogenomic Subgenome Detection pipeline

barley-agroclimatic-association

Association with high-resolution climate data reveals selection footprints in genomes of barley landraces across the Iberian peninsula

barley_pangenes

Clusters of gene models or alleles found in barley assemblies in a similar genomic location

barleygo

Software to annotate barley sequences with Gene Ontology terms

bioconda-recipes

Conda recipes for the bioconda channel.

bioinformatica_estructural

Este material presenta algunos algoritmos para el estudio de la estructura molecular de proteínas y ácidos nucleicos. Introduce problemas (y estrategias para resolverlos) desde la estructura primaria a la cuaternaria. A lo largo hay referencias a artículos y ejercicios que a veces requieren conocimientos de programación.

bioinformatics

Bioinformatics resources and best-practices for beginners

biostats_bioinfo

Source code of teaching material for the course Biostatistics and Bioinformatics

chloroplast_assembly_protocol

A set of scripts for the assembly of chloroplast genomes out of whole-genome sequencing reads

coexpression_motif_discovery

Discovering cis-regulatory motifs in proximal promoters of plants in RSAT::Plants

eead-csic-compbio.github.io

Website source of the Computational & Structural Biology group @EEAD-CSIC

eeadannot

Manual curation of selected DNA motifs and cis regulatory sites, mostly from plants

footprintdbclient

Query footprintDB from the command-line

get_homologues

GET_HOMOLOGUES: a versatile software package for pan-genome analysis

kmeleon

Pipeline for k-mer count analysis of genomic diversity

metagenome_pfam_score

Protocol for finding informative protein families and then using them to score metagenomic sets.

methods_biostats_bioinfo

Sample data and source code used in the course "Methods in biostatistics and bioinformatics"

perl_bioinformatica

phg_v2

PHG version 2

plantoquimica

Paseo bioquímico y genómico en el jardín botánico

primers4clades

Automated pipeline for the design of PCR primers for cross-species amplification of novel sequences

prunusmap_web

This is the web interface of prunusmap application, which uses the barleymap search engine

scripting_linux_shell

A collection of recipes to start scripting in the linux command line

split_pairs

split_pairs.pl is a simple and efficient utility for pre-processing NGS sequence reads in FASTQ and FASTA formats, suited particularly for the task of sorting pair end reads and for modifying their headers with Perl-style regular expressions

subopt-kaks

Suboptimal alignments and Ka, Ks calculations

vcf-filter

Java tool to filter an input VCF file a la carte, based on HTSJDK and Apache commons CLI.

vcf2alignment

Protocol to produce multiple sequence alignments out of VCF files which can be used for phylogenetic tree construction.