MetaWRAP binning
Introduction
- multi fastq (paired-end)
The forward file names must be "XXX_1.fastq", "XXX_R1.fastq" or "XXX_R1_XXX.fastq" and the reverse file names must be "XXX_2.fastq", "XXX_R2.fastq" or "XXX_R2_XXX.fastq".
- fasta (nucleotide)
The file name extension must end with ".fa" or ".fasta".
-
FASTA files for each bin [fasta (nucleotide)]
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Information [downloadable]
- The assignment of taxonomy for each bin by CheckM.
------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Bin Id Marker lineage # genomes # markers # marker sets 0 1 2 3 4 5+ Completeness Contamination Strain heterogeneity ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- bin.12 c__Gammaproteobacteria (UID4444) 263 505 231 2 500 3 0 0 0 99.71 0.70 0.00 bin.2 f__Rhodobacteraceae (UID3340) 84 568 330 11 555 2 0 0 0 97.73 0.20 0.00 bin.4 o__Actinomycetales (UID1593) 69 400 198 21 377 2 0 0 0 94.22 0.61 50.00 bin.7 f__Rhodobacteraceae (UID3356) 67 615 329 42 552 21 0 0 0 93.25 3.57 76.19 bin.9 s__algicola (UID2846) 47 571 303 64 489 18 0 0 0 87.34 2.98 61.11 bin.5 c__Gammaproteobacteria (UID4443) 356 451 270 82 358 11 0 0 0 87.04 1.96 81.82 bin.1 s__algicola (UID2847) 33 496 263 102 366 26 2 0 0 75.80 4.00 46.88 bin.8 p__Proteobacteria (UID3880) 1495 242 151 72 165 5 0 0 0 70.56 2.98 40.00 bin.10 c__Gammaproteobacteria (UID4443) 356 451 270 131 314 6 0 0 0 67.96 0.92 33.33
- The assignment of taxonomy for each bin by metaWrap.
bin completeness contamination GC lineage N50 size binner bin.12 99.71 0.697 0.417 Gammaproteobacteria 366336 4425968 binsB bin.2 97.72 0.202 0.511 Rhodobacteraceae 39870 3058105 binsAB bin.4 94.21 0.606 0.576 Actinomycetales 101071 1445600 binsA bin.7 93.24 3.568 0.551 Rhodobacteraceae 7028 2513378 binsAB bin.9 87.33 2.978 0.354 algicola 7689 1744558 binsAB bin.5 87.03 1.957 0.510 Gammaproteobacteria 7458 1998585 binsAB bin.1 75.79 3.997 0.371 algicola 2762 1678591 binsB bin.8 70.56 2.980 0.368 Proteobacteria 7356 1315389 binsB bin.10 67.96 0.919 0.433 Gammaproteobacteria 3532 1056065 binsAB bin.13 60.63 2.610 0.443 Gammaproteobacteria 1721 858561 binsB
- TPM vs contig length graph for each bin.
- The assignment of taxonomy for each bin by CheckM.
MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
Inputs
FASTQ Format Specification
Outputs
Options
Comments
Use case
Related information
| MetaWRAP | (Official HP) |
| Portable Pipeline | (Script source code) |