Ahmed M. A. Elsherbini's repositories
download_hmp_data
Download Human microbiome project (WGS) data from hmpdacc.org via https
ISEScan_stats
Condense and summarize many results form ISEScan into CSV for heatmaps
PADLOC_stats
Condense and summarize many results form PADLOC into CSV for heatmaps
blastCblast_stats
Parse binary files from NCBI blast or Cblaster into more useful information (tree, table and pie chart)
HTS_insilico_PCR
High throughput In-silico PCR
MicrobeAnnotator_stats
Condense and summarize MicrobeAnnotator metabolic pathway tab files from many genomes into a big heatmap CSV files
Nasal_CST_quick_checker
Quickly check Community State Type (CSTs) from nasal microbiome data
prokaryotic_assembly_annotate
For bacterial genomes assembly and annotate
AhmedElsherbini
Config files for my GitHub profile.
Bakta_stats
Condense and summarize many results form BAKTA into CSV for statistics
Code-for-RVD-et-al.-2023
Secretory IgA impacts the microbiota density in the human nose
Code_for_Elsherbini_et_al_2023
Utilizing genomic signatures to gain insights into the dynamics of SARS-CoV-2 through Machine and Deep Learning techniques
Locustags_fetcher
Download locus tags from a txt file
Mutations_stats-and-plot
Using an alignment file, get conserved region , the statistics of your mutations , and plot them nicely.
Reverse_complement_Genbank
Reverse and complement genebank files
Translate_multifasta_files
Translate DNA multiFASTA files into 1st reading frame