Tablet statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Tablet
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Tool usage distribution map

This map represents all the scientific publications referring to Tablet per scientific context
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Associated diseases

This word cloud represents Tablet usage per disease context
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Protocols

Tablet specifications

Information


Unique identifier OMICS_00896
Name Tablet
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License BSD 2-clause “Simplified” License
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline David Marshall

Publications for Tablet

Tablet citations

 (199)
call_split

Genome Sequence of a Novel Alloherpesvirus Isolated from Glass Catfish (Kryptopterus bicirrhis)

2018
Genome Announc
PMCID: 5946053
PMID: 29748409
DOI: 10.1128/genomeA.00403-18
call_split See protocol

[…] alloherpesvirus-related contig, which was joined to other contigs manually by PCR and Sanger sequencing. The reads were assembled against the resulting contig by using Bowtie 2 () and viewed by using Tablet (). The genome ends were identified from two large sets of reads sharing an end. The reconstructed genome was 149,343 bp in size and consisted of a unique region of 100,111 bp flanked by termin […]

library_books

Genome comparison of different Zymomonas mobilis strains provides insights on conservation of the evolution

2018
PLoS One
PMCID: 5919020
PMID: 29694430
DOI: 10.1371/journal.pone.0195994

[…] tive to the genome of the Z. mobilis strain ZM4, using a combination of the Contiguator [] and ACT 10.2.0 []. The Illumina reads were remapped to the scaffolds using Bowtie 0.12.7[] and visualized by Tablet 1.12.02.06[]. Annotation was primarily done by Prokka[], which uses Prodigal 2.6 [] to predict gene sequence similarity analysis. GO annotations were assigned by Blast2GO[]. Mauve was applied f […]

library_books

Comparative genomics of the wheat fungal pathogen Pyrenophora tritici repentis reveals chromosomal variations and genome plasticity

2018
BMC Genomics
PMCID: 5913888
PMID: 29685100
DOI: 10.1186/s12864-018-4680-3

[…] g BWA version 0.7.5a-r405 [], and PacBio reads with BWA-SW v0.7.14-r1138 long query read, mismatch penalty 5, gap open penalty 2, gap extension penalty 1, Z-best 10. Alignments were viewed in IGV [], Tablet version 1.16.09.06 [] and SAMtools Tview version 0.1.19-96b5f2294a [].Genome nucleotide pairwise distance was calculated with GenomeTools version 1.5.8 genomediff []. Andi [], with Kimura model […]

library_books

Genome Guided Analysis of Clostridium ultunense and Comparative Genomics Reveal Different Strategies for Acetate Oxidation and Energy Conservation in Syntrophic Acetate Oxidising Bacteria

2018
Genes
PMCID: 5924567
PMID: 29690652
DOI: 10.3390/genes9040225

[…] lymer errors were corrected manually using Consed []. The purity of the scaffolds was also checked against the genome of T. aegyptius DSM 12793. Possible miss-assemblies were corrected manually using Tablet, a graphical viewer for the visualisation of assemblies and read mappings []. Based on these analyses, the high-quality permanent genome that was obtained was only half the size (3,093,245 bp) […]

call_split

Understanding Mucor circinelloides pathogenesis by comparative genomics and phenotypical studies

2018
PMCID: 5955452
PMID: 29436903
DOI: 10.1080/21505594.2018.1435249
call_split See protocol

[…] ov/vista_embed/?organism = Mucci2) using Burrow-Wheeler Aligner (BWA) software, version 0.7.13 [] using bwa mem with the default parameters and the alignment results were visualized using the program Tablet []. Regions with no read aligned were examined and considered unique regions in the CBS277.49 genome. Variant calling to identify single nucleotide polymorphisms (SNPs) were conducted using Sam […]

library_books

Genomic Structural Variations Affecting Virulence During Clonal Expansion of Pseudomonas syringae pv. actinidiae Biovar 3 in Europe

2018
Front Microbiol
PMCID: 5895724
PMID: 29675009
DOI: 10.3389/fmicb.2018.00656

[…] by PICARD tools; the resulting sam file was processed by GATK, and the output VCFs read by a bash script that checked each SNP for support and organized the results in a table for manual examination. Tablet (Milne et al., ) was used for the visualization of the alignments.The genome assemblies for SMRT sequencing data were first generated using the hierarchical genome-assembly process (HGAP) [2], […]


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Tablet institution(s)
Genetics Programme, Scottish Crop Research Institute, Invergowrie, Dundee, UK
Tablet funding source(s)
Scottish Government (RERAD, Programme 1); the Scottish Funding Council and Scottish Enterprise through the Scottish Bioinformatics Research Network (SBRN) project

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