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Merge pull request #46 from NFDI4Microbiota/nacnoriko-patch-3
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Update Genome_Technical_Metadata.tsv
Updated the MIMAG links
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@MartinBoleSlo
MartinBoleSlo authored Aug 12, 2024
2 parents e443cfa + bd2ac87 commit 53cefec
Showing 1 changed file with 7 additions and 7 deletions.
14 changes: 7 additions & 7 deletions Technical/Genome_Technical_Metadata.tsv
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Expand Up @@ -12,7 +12,7 @@ genomic FASTQ sequence_count_qual Number of reads in the library (sequencing dep
genomic FASTQ basepairs_count_qual Number of base pairs (nucleotides) in the library after quality filtering SRA-Tinder https://github.com/NCBI-Hackathons/SRA_Tinder
genomic FASTQ checksum Hash value (e.g. MD5) for data integrity
genomic FASTA run_ref Accessions/identifiers linking to the raw data (FASTQ) Adapted from ENA https://ena-docs.readthedocs.io/en/latest/submit/analyses/read-alignments.html; https://ena-docs.readthedocs.io/en/latest/submit/reads/webin-cli.html#metadata-validation
genomic FASTA tax_ident Phylogenetic marker(s) for MAG assignation GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIMAG/; https://doi.org/10.1038/nbt.3893
genomic FASTA tax_ident Phylogenetic marker(s) for MAG assignation GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/0010012; https://doi.org/10.1038/nbt.3893
genomic FASTA assembly_qual Assembly quality category (e.g. Medium Quality Draft) GSC MIxS/MIGS Bacteria https://genomicsstandardsconsortium.github.io/mixs/MIGSBacteria/; https://doi.org/10.1038/nbt1360
genomic FASTA assembly_software "Tool(s) used version and parameters" GSC MIxS/MIGS Bacteria https://genomicsstandardsconsortium.github.io/mixs/MIGSBacteria/; https://doi.org/10.1038/nbt1360
genomic FASTA coverage The estimated depth of sequencing coverage (in x) ENA Submitting Metagenome Assemblies https://ena-docs.readthedocs.io/en/latest/submit/assembly/metagenome.html
Expand All @@ -22,9 +22,9 @@ genomic FASTA LSU_recover Detection of the 23S rRNA (BA) or 5.8S/28S rRNA (E) Ad
genomic FASTA LSU_recover_software Tools for LSU extraction Adapted from GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIGSBacteria/; https://doi.org/10.1038/nbt1360
genomic FASTA SSU_recover Detection of the 16S rRNA (BA) or 18S rRNA (E) Adapted from GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIGSBacteria/; https://doi.org/10.1038/nbt1360
genomic FASTA SSU_recover_software Tools for SSU extraction Adapted from GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIGSBacteria/; https://doi.org/10.1038/nbt1360
genomic FASTA trnas Total number of tRNAs identified GSC MIXS: MIMAG; Roadmap for naming uncultivated Archaea and Bacteria https://genomicsstandardsconsortium.github.io/mixs/MIMAG/;https://doi.org/10.1038/nbt.3893; https://doi.org/10.1038/s41564-020-0733-x
genomic FASTA trna_ext_software Tools used for tRNA identification GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIMAG/; https://doi.org/10.1038/nbt.3893
genomic FASTA compl_score Completeness score GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIMAG/; https://doi.org/10.1038/nbt.3893
genomic FASTA compl_software Tools used for completion estimate GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIMAG/; https://doi.org/10.1038/nbt.3893
genomic FASTA contam_score Contamination score GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIMAG/; https://doi.org/10.1038/nbt.3893
genomic FASTA contam_software Tool(s) used in contamination screening GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/MIMAG/; https://doi.org/10.1038/nbt.3893
genomic FASTA trnas Total number of tRNAs identified GSC MIXS: MIMAG; Roadmap for naming uncultivated Archaea and Bacteria https://genomicsstandardsconsortium.github.io/mixs/0010012;https://doi.org/10.1038/nbt.3893; https://doi.org/10.1038/s41564-020-0733-x
genomic FASTA trna_ext_software Tools used for tRNA identification GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/0010012; https://doi.org/10.1038/nbt.3893
genomic FASTA compl_score Completeness score GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/0010012; https://doi.org/10.1038/nbt.3893
genomic FASTA compl_software Tools used for completion estimate GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/0010012; https://doi.org/10.1038/nbt.3893
genomic FASTA contam_score Contamination score GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/0010012; https://doi.org/10.1038/nbt.3893
genomic FASTA contam_software Tool(s) used in contamination screening GSC MIXS: MIMAG https://genomicsstandardsconsortium.github.io/mixs/0010012; https://doi.org/10.1038/nbt.3893

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