290 related articles for article (PubMed ID: 29939994)
1. Removing contaminants from databases of draft genomes.
Lu J; Salzberg SL
PLoS Comput Biol; 2018 Jun; 14(6):e1006277. PubMed ID: 29939994
[TBL] [Abstract][Full Text] [Related]
2. Selection of marker genes for genetic barcoding of microorganisms and binning of metagenomic reads by Barcoder software tools.
Rotimi AM; Pierneef R; Reva ON
BMC Bioinformatics; 2018 Aug; 19(1):309. PubMed ID: 30165813
[TBL] [Abstract][Full Text] [Related]
3. drVM: a new tool for efficient genome assembly of known eukaryotic viruses from metagenomes.
Lin HH; Liao YC
Gigascience; 2017 Feb; 6(2):1-10. PubMed ID: 28369462
[TBL] [Abstract][Full Text] [Related]
4.
Todd SM; Settlage RE; Lahmers KK; Slade DJ
mSphere; 2018 Jul; 3(4):. PubMed ID: 29976645
[TBL] [Abstract][Full Text] [Related]
5. Species classifier choice is a key consideration when analysing low-complexity food microbiome data.
Walsh AM; Crispie F; O'Sullivan O; Finnegan L; Claesson MJ; Cotter PD
Microbiome; 2018 Mar; 6(1):50. PubMed ID: 29554948
[TBL] [Abstract][Full Text] [Related]
6. PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures.
Krawczyk PS; Lipinski L; Dziembowski A
Nucleic Acids Res; 2018 Apr; 46(6):e35. PubMed ID: 29346586
[TBL] [Abstract][Full Text] [Related]
7. PAIPline: pathogen identification in metagenomic and clinical next generation sequencing samples.
Andrusch A; Dabrowski PW; Klenner J; Tausch SH; Kohl C; Osman AA; Renard BY; Nitsche A
Bioinformatics; 2018 Sep; 34(17):i715-i721. PubMed ID: 30423069
[TBL] [Abstract][Full Text] [Related]
8. How to Obtain and Compare Metagenome-Assembled Genomes.
Sanchez FB; Sato Guima SE; Setubal JC
Methods Mol Biol; 2024; 2802():135-163. PubMed ID: 38819559
[TBL] [Abstract][Full Text] [Related]
9. VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data.
Ren J; Ahlgren NA; Lu YY; Fuhrman JA; Sun F
Microbiome; 2017 Jul; 5(1):69. PubMed ID: 28683828
[TBL] [Abstract][Full Text] [Related]
10. Estimating DNA coverage and abundance in metagenomes using a gamma approximation.
Hooper SD; Dalevi D; Pati A; Mavromatis K; Ivanova NN; Kyrpides NC
Bioinformatics; 2010 Feb; 26(3):295-301. PubMed ID: 20008478
[TBL] [Abstract][Full Text] [Related]
11. Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data.
Davis NM; Proctor DM; Holmes SP; Relman DA; Callahan BJ
Microbiome; 2018 Dec; 6(1):226. PubMed ID: 30558668
[TBL] [Abstract][Full Text] [Related]
12. Fast identification and removal of sequence contamination from genomic and metagenomic datasets.
Schmieder R; Edwards R
PLoS One; 2011 Mar; 6(3):e17288. PubMed ID: 21408061
[TBL] [Abstract][Full Text] [Related]
13. Sigma: strain-level inference of genomes from metagenomic analysis for biosurveillance.
Ahn TH; Chai J; Pan C
Bioinformatics; 2015 Jan; 31(2):170-7. PubMed ID: 25266224
[TBL] [Abstract][Full Text] [Related]
14. Human contamination in bacterial genomes has created thousands of spurious proteins.
Breitwieser FP; Pertea M; Zimin AV; Salzberg SL
Genome Res; 2019 Jun; 29(6):954-960. PubMed ID: 31064768
[TBL] [Abstract][Full Text] [Related]
15. COGNIZER: A Framework for Functional Annotation of Metagenomic Datasets.
Bose T; Haque MM; Reddy C; Mande SS
PLoS One; 2015; 10(11):e0142102. PubMed ID: 26561344
[TBL] [Abstract][Full Text] [Related]
16. [A review on the bioinformatics pipelines for metagenomic research].
Ye DD; Fan MM; Guan Q; Chen HJ; Ma ZS
Dongwuxue Yanjiu; 2012 Dec; 33(6):574-85. PubMed ID: 23266976
[TBL] [Abstract][Full Text] [Related]
17. The use of taxon-specific reference databases compromises metagenomic classification.
R Marcelino V; Holmes EC; Sorrell TC
BMC Genomics; 2020 Feb; 21(1):184. PubMed ID: 32106809
[TBL] [Abstract][Full Text] [Related]
18. Strain-level metagenomic assignment and compositional estimation for long reads with MetaMaps.
Dilthey AT; Jain C; Koren S; Phillippy AM
Nat Commun; 2019 Jul; 10(1):3066. PubMed ID: 31296857
[TBL] [Abstract][Full Text] [Related]
19. Utilizing the VirIdAl Pipeline to Search for Viruses in the Metagenomic Data of Bat Samples.
Budkina AY; Korneenko EV; Kotov IA; Kiselev DA; Artyushin IV; Speranskaya AS; Khafizov K; Akimkin VG
Viruses; 2021 Oct; 13(10):. PubMed ID: 34696436
[TBL] [Abstract][Full Text] [Related]
20. ReprDB and panDB: minimalist databases with maximal microbial representation.
Zhou W; Gay N; Oh J
Microbiome; 2018 Jan; 6(1):15. PubMed ID: 29347966
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]