hyb specifications

Information


Unique identifier OMICS_25237
Name hyb
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl, Shell (Bash)
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Grzegorz Kudla <>

Publication for hyb

hyb in publications

 (3)
PMCID: 5464676
PMID: 28542199
DOI: 10.1371/journal.pgen.1006804

[…] for acetylation and other modifications could be indirect, namely as a consequence of upstream 90s conformational changes that are facilitated by kre33., we analyzed our crac-data-sets with the hyb-pipeline [] to find chimeric reads of different rnas that were cross-linked to the same kre33 molecule and therefore could have been ligated together during library preparation []. in direct […]

PMCID: 5397155
PMID: 28003477
DOI: 10.1093/nar/gkw1289

[…] that are enriched in the ip, read coverage throughout the hiv genome was calculated, normalized by the number of hits and sequencing depth. for the calling of chimeras in hits-clip data using hyb (), hits-clip reads were pre-processed selecting flexbar preprocessing, trimming reads from 3΄ end with a minimum read length of 17, then chimeras where called using hyb default parameters […]

PMCID: 5286369
PMID: 27836995
DOI: 10.15252/embj.201694639

[…] hiseq2500 sequencing at genepool (university of edinburgh). sequence data has been deposited at ncbi geo (series gse77463)., sequencing reads generated by rnase e‐clash were analysed using the hyb package (travis et al, ). details of the in silico analysis are presented in ., we employed the two‐plasmid system described by corcoran et al () to monitor translation efficiency of mrna‐sfgfp […]


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hyb institution(s)
Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, UK; Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK; MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, UK
hyb funding source(s)
Supported by the BBSRC Grant BB/J001279/1; by the Wellcome Trust Grant 097383; by the Wellcome Trust Grant 077248 and by the MRC.

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