tag:crantastic.org,2005:/authors/6849Latest activity for Deisy Morselli Gysi2018-07-06T16:40:35Zcrantastic.orgtag:crantastic.org,2005:TimelineEvent/772352018-07-06T16:40:35Z2018-07-06T16:40:35ZCoDiNA was upgraded to version 1.1<a href="/packages/CoDiNA">CoDiNA</a> was <span class="action">upgraded</span> to version <a href="/packages/CoDiNA/versions/73713">1.1</a><br /><h3>Package description:</h3><p>Categorize links and nodes from multiple networks in 3 categories: Common links (alpha) specific links (gamma), and different links (beta). Also categorizes the links into sub-categories and groups. The package includes a visualization tool for the networks. More information about the methodology can be found at: Gysi et. al., 2018 <arXiv:1802.00828>.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/768832018-06-28T08:43:06Z2018-06-28T08:43:06ZwTO was upgraded to version 1.6.1<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/73365">1.6.1</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/757632018-05-30T16:23:01Z2018-05-30T16:23:01ZwTO was upgraded to version 1.6<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/72320">1.6</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/721162018-03-02T11:42:59Z2018-03-02T11:42:59ZwTO was upgraded to version 1.5<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/68865">1.5</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/713662018-02-08T10:00:50Z2018-02-08T10:00:50ZCoDiNA was released<a href="/packages/CoDiNA">CoDiNA</a> was <span class="action">released</span><br /><h3>Package description:</h3><p>Categorize links and nodes from multiple networks in 3 categories: Common links (alpha) specific links (gamma), and different links (beta). Also categorizes the links into sub-categories and groups. The package includes a visualization tool for the networks. More information about the methodology can be found at: Gysi et. al., 2018 <arXiv:1802.00828>.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/711142018-02-01T13:03:02Z2018-02-01T13:03:02ZwTO was upgraded to version 1.4.2<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/67916">1.4.2</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/687432017-11-22T12:02:30Z2017-11-22T12:02:30ZwTO was upgraded to version 1.4.1<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/65731">1.4.1</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/682542017-11-12T10:42:25Z2017-11-12T10:42:25ZwTO was upgraded to version 1.4.0<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/65291">1.4.0</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/670322017-10-04T13:22:38Z2017-10-04T13:22:38ZwTO was upgraded to version 1.3.0<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/64118">1.3.0</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/645882017-07-16T15:42:09Z2017-07-16T15:42:09ZwTO was upgraded to version 1.2.2<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/61777">1.2.2</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/633372017-06-08T12:02:39Z2017-06-08T12:02:39ZwTO was upgraded to version 1.2.0<a href="/packages/wTO">wTO</a> was <span class="action">upgraded</span> to version <a href="/packages/wTO/versions/60569">1.2.0</a><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap (wTO) networks. Once a data.frame containing the count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction.It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a Consensus network, based on multiple wTOs. Also includes a visualization tool for the final network.</p>crantastic.orgtag:crantastic.org,2005:TimelineEvent/630092017-05-29T08:42:09Z2017-05-29T08:42:09ZwTO was released<a href="/packages/wTO">wTO</a> was <span class="action">released</span><br /><h3>Package description:</h3><p>Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.</p>crantastic.org