diff --git a/AST/AST_Acinetobacter_baumannii.tsv.gz b/AST/AST_Acinetobacter_baumannii.tsv.gz new file mode 100644 index 0000000..4a6541a Binary files /dev/null and b/AST/AST_Acinetobacter_baumannii.tsv.gz differ diff --git a/AST/AST_Campylobacter.tsv.gz b/AST/AST_Campylobacter.tsv.gz new file mode 100644 index 0000000..ac1a3fb Binary files /dev/null and b/AST/AST_Campylobacter.tsv.gz differ diff --git a/AllTheBacteria/ATB_Campylobacter_AFP_complement1.tsv.gz b/AllTheBacteria/ATB_Campylobacter_AFP_complement1.tsv.gz new file mode 100644 index 0000000..2e3b3e8 Binary files /dev/null and b/AllTheBacteria/ATB_Campylobacter_AFP_complement1.tsv.gz differ diff --git a/AllTheBacteria/ATB_Campylobacter_AFP_complement1_info.txt b/AllTheBacteria/ATB_Campylobacter_AFP_complement1_info.txt new file mode 100644 index 0000000..182b4b2 --- /dev/null +++ b/AllTheBacteria/ATB_Campylobacter_AFP_complement1_info.txt @@ -0,0 +1,9 @@ +On November 25th, 2024 there were ASTs available for 4010 genomes of Campylobacter, but in AllTheBacteria AFP data was available only for 3522 of them. + +From the remaining 488, 484 genomes could be downloaded as assemblies from NCBI and the other 4 (SAMN13718873,SAMN20119351,SAMN22985687,SAMN37751381) as FASTQ short raw reads. The latter were assembled with SKESA 2.5.1. + +All 488 assembled genomes were analyzed with AMRFinderPlus 4.0.3 using the following command: + +amrfinder --plus --print_node -O Campylobacter -o file_output.txt -n file_input_genomic.fna.gz + +Non-empty results were obtained for 358 genomes, that are present in ATB_Campylobacter_AFP_complement1.tsv.gz. \ No newline at end of file