Selective Pressure Analysis - Pinnipedia
Vespasian_raw_outputs: The file "Vespasian_results.0.8-combined" is the outputted file from the Vespasian analysis after it was parsed with a filter script. This contains all the raw outputs from he selective pressure analysis with BEB scores filtered for >0.8. The unique selected sites...
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ftzenodo:oai:zenodo.org:8384150 2024-09-15T18:10:55+00:00 Selective Pressure Analysis - Pinnipedia Orr, David 2023-09-27 https://doi.org/10.5281/zenodo.8384150 unknown Zenodo https://doi.org/10.5281/zenodo.8384149 https://doi.org/10.5281/zenodo.8384150 oai:zenodo.org:8384150 info:eu-repo/semantics/restrictedAccess info:eu-repo/semantics/other 2023 ftzenodo https://doi.org/10.5281/zenodo.838415010.5281/zenodo.8384149 2024-07-26T17:56:40Z Vespasian_raw_outputs: The file "Vespasian_results.0.8-combined" is the outputted file from the Vespasian analysis after it was parsed with a filter script. This contains all the raw outputs from he selective pressure analysis with BEB scores filtered for >0.8. The unique selected sites are the scores for all the sites uniquely selected to a lineage. And then individually broken down into each lineage. Gene_analysis: This directory contains all the analyses I did to attempt to uncover orthologous groups related to different different associated lactation traits. This is quite a messy directory so let me know if there is anything specific you would like to know here. I have then included some analysis directories I had, looking at each lineage individually. Such as how I performed the enrichment analysis and their related scripts. Again a slightly messy directory so happy to answer any questions on this. REGs: This is the analysis for the rapidly evolving site analysis I did for the Caspian and Hooded seal. Alignments: This is a dump of all the alignments I used for the analysis. All_alignments is my raw MSAs before I did any additional filtering for the selection analysis such aspruning for single orthologs. Selected MSAs are the pruned orthologs for all the MSAs I put into Vespasian for each lineage. All_vespasian_MSAs are all the 7000+ MSAs I used in the section analysis. Other/Unknown Material hooded seal Zenodo |
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Open Polar |
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ftzenodo |
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description |
Vespasian_raw_outputs: The file "Vespasian_results.0.8-combined" is the outputted file from the Vespasian analysis after it was parsed with a filter script. This contains all the raw outputs from he selective pressure analysis with BEB scores filtered for >0.8. The unique selected sites are the scores for all the sites uniquely selected to a lineage. And then individually broken down into each lineage. Gene_analysis: This directory contains all the analyses I did to attempt to uncover orthologous groups related to different different associated lactation traits. This is quite a messy directory so let me know if there is anything specific you would like to know here. I have then included some analysis directories I had, looking at each lineage individually. Such as how I performed the enrichment analysis and their related scripts. Again a slightly messy directory so happy to answer any questions on this. REGs: This is the analysis for the rapidly evolving site analysis I did for the Caspian and Hooded seal. Alignments: This is a dump of all the alignments I used for the analysis. All_alignments is my raw MSAs before I did any additional filtering for the selection analysis such aspruning for single orthologs. Selected MSAs are the pruned orthologs for all the MSAs I put into Vespasian for each lineage. All_vespasian_MSAs are all the 7000+ MSAs I used in the section analysis. |
format |
Other/Unknown Material |
author |
Orr, David |
spellingShingle |
Orr, David Selective Pressure Analysis - Pinnipedia |
author_facet |
Orr, David |
author_sort |
Orr, David |
title |
Selective Pressure Analysis - Pinnipedia |
title_short |
Selective Pressure Analysis - Pinnipedia |
title_full |
Selective Pressure Analysis - Pinnipedia |
title_fullStr |
Selective Pressure Analysis - Pinnipedia |
title_full_unstemmed |
Selective Pressure Analysis - Pinnipedia |
title_sort |
selective pressure analysis - pinnipedia |
publisher |
Zenodo |
publishDate |
2023 |
url |
https://doi.org/10.5281/zenodo.8384150 |
genre |
hooded seal |
genre_facet |
hooded seal |
op_relation |
https://doi.org/10.5281/zenodo.8384149 https://doi.org/10.5281/zenodo.8384150 oai:zenodo.org:8384150 |
op_rights |
info:eu-repo/semantics/restrictedAccess |
op_doi |
https://doi.org/10.5281/zenodo.838415010.5281/zenodo.8384149 |
_version_ |
1810448508863381504 |