Alex Predeus's repositories
10k_genomes
Various scripts for efficient processing of 10k Salmonella genomes
multi-bacpipe
A convenient pipeline for processing of multi-strain bacterial RNA-Seq experiments
bioconda-recipes
Conda recipes for the bioconda channel.
annogesic_scripts
running ANNOgesic for Salmonella
D37_salmonella_paper
all the code and small data files relevant to D37712 genome + RNA-seq paper
guess_ensg
Series of scripts useful at guessing of used 10x or Ensembl/Gencode reference from a list of gene names
old_genequery
Old stand-alone application and web-server for GeneQuery, as well as source code for binary files. Preprocessing is available elsewhere.
P_alcalifaciens
genome analysis of P. alcalifaciens
salmonella_pathways
Custom gene sets enriched in Salmonella under various in vitro and in vivo conditions
scg_lib_structs
Collections of library structure and sequence of popular single cell genomic methods
skater_rnaseq
Analysis of whole blood RNA-sequencing of skaters before and after exercise
apredeus.github.io
NGS bioinformatics and pipelines