Difference between revisions of "Cypridinidae Phylogeny"
From Ucsbgalaxy
| Line 5: | Line 5: | ||
* Requires conversion of species names to match other data | * Requires conversion of species names to match other data | ||
** Partly done, but needed for some data partitions | ** Partly done, but needed for some data partitions | ||
| − | + | ||
===Lisa Torres Matrix=== | ===Lisa Torres Matrix=== | ||
| Line 24: | Line 24: | ||
==TO DO== | ==TO DO== | ||
| + | * In MorphoBank, Create separate partitions for binary and multi | ||
* Full mt genomes could be useful and might be present in transcriptomes. Make HMM set for ostracod mt genomes using V. hilgendorfii and Argulus(?) | * Full mt genomes could be useful and might be present in transcriptomes. Make HMM set for ostracod mt genomes using V. hilgendorfii and Argulus(?) | ||
Revision as of 10:44, 25 September 2013
Contents
Data Sources
Morphological matrix
- Cohen and Morin (2003)
- Uploaded to MorphoBank
- Requires conversion of species names to match other data
- Partly done, but needed for some data partitions
Lisa Torres Matrix
- Thesis of Vanessa Gonzalez
- 16S, COI, 12S and H3 genes
Transcriptome Data
- Oakley et al (2013) included Skogsbergia lerneri and Vargula tsujii [[1]]
- OET13 included Regier (2010) data in S. lerneri
- von Reumont (2011) included 1 undescribed species. Based on collection locality in Mediterranean, this is likely Skogsbergia [[2]]
GenBank Data
- 18S
- 16S
- Wakayama see table 1 [[5]]
TO DO
- In MorphoBank, Create separate partitions for binary and multi
- Full mt genomes could be useful and might be present in transcriptomes. Make HMM set for ostracod mt genomes using V. hilgendorfii and Argulus(?)
