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start [2015/07/16 18:06] ceisenhart [Post-assembly analysis] |
start [2015/10/07 03:14] (current) karplus [About the slug] fixed spelling and capitalization of species |
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| This project is hosted at UCSC as a graduate class BME235. All information is publicly accessible and free to use, please cite the authors when possible and the wiki as a whole. Please contact [[https://www.soe.ucsc.edu/people/karplus | Kevin Karplus]] with general questions. For questions on specific assemblies please identify the team that created the assembly and email them directly. | This project is hosted at UCSC as a graduate class BME235. All information is publicly accessible and free to use, please cite the authors when possible and the wiki as a whole. Please contact [[https://www.soe.ucsc.edu/people/karplus | Kevin Karplus]] with general questions. For questions on specific assemblies please identify the team that created the assembly and email them directly. | ||
| ===== About the slug ===== | ===== About the slug ===== | ||
| - | //Ariolimax Dolicophallus// is a relatively unstudied species. Here we aim to provide concise and accurate biological information about //Ariolimax Dolicophallus//. | + | //Ariolimax dolichophallus// is a relatively unstudied species. Here we aim to provide concise and accurate biological information about //Ariolimax dolichophallus//. |
| - | [[About the slug | Biological information about the slug ]] | + | [[about_the_slug:about_the_slug| About the slug ]] |
| + | |||
| + | [[Banana_Slug_Dissection | Banana Slug Dissection]] | ||
| ===== Data ===== | ===== Data ===== | ||
| - | Links to the raw data, as well as processed data are provided [[Data overview | here]] | + | Links to the raw [[data_overview:data_overview| data]], as well as processed data are provided [[data_overview:data_overview| here]]. The data includes mate-pair data, raw Illumina reads, and RNA-seq. |
| - | [[Data overview | Access to the raw and processed data]] | + | [[data_overview:data_overview| Data]] |
| ===== Assemblies ===== | ===== Assemblies ===== | ||
| - | The assemblies are available for annotation, merging and other bioinformatics uses. | + | The [[assemblies:assemblies| assemblies ]] are available for annotation, merging and other bioinformatics uses. The assemblies include full nuclear assemblies as well as mitochondrion assemblies. |
| - | [[Full_genome_assemblies | Full genome assemblies ]] | + | [[assemblies:assemblies| Assemblies ]] |
| - | + | ||
| - | [[Mitochondrion_assemblies | Mitochondrion assemblies ]] | + | |
| ===== Post-assembly analysis ===== | ===== Post-assembly analysis ===== | ||
| - | Our [[Post-assembly_analysis|analysis]] of the completed assemblies. Includes the [[Banana slug genome browser |UCSC track hub for the banana slug]], analysis of heterozygosity and any annotation results. | + | Our [[post-assembly_analysis:post-assembly_analysis|analysis]] of the completed assemblies. Includes the [[post-assembly_analysis:banana_slug_genome_browser|UCSC assembly hub for the banana slug]], analysis of heterozygosity, the [[post-assembly_analysis:2015:rna_scaffolding | RNA scaffolding efforts]] and any progress made on gene finding/annotation. |
| - | + | ||
| - | [[Post-assembly_analysis | Post-assembly analysis ]] | + | |
| - | [[Banana slug genome browser] | UCSC Genome Browser Banana slug track hub]] | + | [[post-assembly_analysis:post-assembly_analysis| Post-assembly analysis ]] |
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| ===== About the class ===== | ===== About the class ===== | ||
| - | The project is supported at UCSC as the BME235 Banana Slug Genomics class. More information about the class can be found in the [[About the class | general information]] link. To see which students have worked on the project view the [[Contributors | contributors ]] link. The budget for the project is publicly viewable using the [[Budget | budget]] link. Old pages, pages that do not follow the style guide, and pages that cannot be assimilated into the main wiki are archived [[Archive | here]]. | + | The project is supported at UCSC as the BME235 Banana Slug Genomics class. More information about the class can be found in the [[about_the_class:about_the_class| general information]] link. To see which students have worked on the project view the [[contributors:contributors| contributors ]] link. The budget for the project is publicly viewable using the [[about_the_class:budget| budget]] link. Old pages, pages that do not follow the style guide, and pages that cannot be assimilated into the main wiki are archived [[archive:archive| here]]. |
| - | [[About the class | General information ]] | + | [[about_the_class:about_the_class| About the class ]] |
| - | [[Contributors | Contributors]] | + | [[contributors:contributors| Contributors]] |
| - | [[Budget | Budget]] | + | [[about_the_class:budget| Budget]] |
| - | [[Archive | Archive]] | + | [[archive:archive| Archive]] |
| - | Currently we **are not** accepting donations. Thanks to all our current and previous donors! | + | Currently we **are not** accepting donations. Thanks to all our past donors! |
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start.1437069995.txt.gz · Last modified: 2015/07/16 18:06 by ceisenhart
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