Contaminant | Value | Contam DB Description | Path to DB |
Artifacts | [_CONTAM-ART-SEA-PCT_]% |
Sequencing artifacts | /global/dna/shared/rqc/ref_databases/qaqc/databases/illumina.artifacts/Illumina.artifacts.2013.12.no_DNA_RNA_spikeins.fa |
[_CONTAN-ART-SEAL-FIRST-BP_]
DNA spike-ins | [_DNA-SPIKEIN-SEAL_PCT_]% |
DNA spike-in sequences | /global/dna/shared/rqc/ref_databases/qaqc/databases/illumina.artifacts/DNA_spikeins.artifacts.2012.10.fa.bak |
RNA spike-ins | [_RNA-SPIKEIN-SEAL_PCT_]% |
RNA tru-seq spike-in sequences | /global/dna/shared/rqc/ref_databases/qaqc/databases/illumina.artifacts/RNA_spikeins.artifacts.2012.10.NoPolyA.fa |
Fosmid | [_CONTAM-FOSMID-SEAL-PCT_]% |
etc | /global/dna/shared/rqc/ref_databases/qaqc/databases/pCC1Fos.ref.fa |
Mitochondria | [_CONTAM-MITO-SEAL-PCT_]% |
etc | /global/dna/shared/rqc/ref_databases/ncbi/CURRENT/refseq.mitochondrion/refseq.mitochondrion |
Chloroplast | [_CONTAM-CHLO-SEAL-PCT_]% |
etc | /global/dna/shared/rqc/ref_databases/ncbi/CURRENT/refseq.plastid/refseq.plastid |
PhiX | [_CONTAM-PHIX-SEAL-PCT_]% |
etc | /global/dna/shared/rqc/ref_databases/qaqc/databases/phix174_ill.ref.fa |
rRNA | [_CONTAM-RRNA-SEAL-PCT_]% |
etc | /global/dna/shared/rqc/ref_databases/qaqc/databases/rRNA.fa |
Non-synthetic Contaminants | [_CONTAM-NON-SYN-SEAL-PCT_]% |
etc | /global/projectb/sandbox/gaag/bbtools/commonMicrobes/fusedERPBBmasked.fa.gz |
Synthetic Contaminants | [_CONTAM-SYN-SEAL-PCT_]% |
etc | /global/projectb/sandbox/gaag/bbtools/data/Illumina.artifacts.2013.12.no_DNA_RNA_spikeins.fa.gz |
Adapters | [_CONTAM-ADAPTER-PCT_]% |
etc | /global/projectb/sandbox/gaag/bbtools/data/adapters.fa |