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tidybulk SummarizedExperiment needed for README
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Digital and Physical Worlds: Exploring Consumer Information Needs During UK Bank Branch Closures
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Fig. 2 in Data storage and data re-use in taxonomy-the need for improved storage and accessibility of heterogeneous data
Fig. 2 Sch_m_ of a data packag_ in taxonomy c_nt_r_d around a sp_cim_n. This _xampl_ is from zoology, and data typ_s will obviously diff_r among taxa
Multimodal fish feeding behavior dataset Part 1 (You need download all dataset from Part 2 (https://zenodo.org/records/11060370) and Part 3 (https://zenodo.org/records/11060195))
<p>Multimodal Fish Feeding Intensity Assessment in Aquaculture (The paper you can find on Arxiv: <a href="https://arxiv.org/pdf/2309.05058.pdf" rel="nofollow">https://arxiv.org/pdf/2309.05058.pdf</a>) .</p>
STUDENTS' NEED TO DEVELOP PERSONAL VALUES IN EDUCATIONAL CLASSES
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Assessing the guidance and counseling needs through cognitive and non-cognitive development of students in secondary public schools
<p>These images are depiction of data analysis on excel </p>
Open Data The Need of TNR
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Figure 1 from: Penev L, Lumbsch T, Miller A, Begerow D (2011) MycoKeys, or why we need a new journal in mycology? MycoKeys 1: 1-6. https://doi.org/10.3897/mycokeys.1.2058
Figure 1 - Pensoft Taxon Profile (PTP) for the genus Aspergillus (Eurotiomycetes) obtained dynamically from external web resources. The profile is generated by clicking on any taxon name published in a MycoKeys paper, in this case in the paper by Raja et al. (2011). The links on the left bar, if in bold font, lead to various biodiversity platforms where information on this taxon is available; links in normal font indicate that there is no information on the taxon in the particular platform. The PTP tool is available also as standalone application at http://www.ptp.pensoft.eu
Figure 1 from: Moore W (2011) Biology needs cyberinfrastructure to facilitate specimen-level data acquisition for insects and other hyperdiverse groups. ZooKeys 147: 479-486. https://doi.org/10.3897/zookeys.147.1944
Figure 1 - Schematic of integration of components. The blue funnel (on left) depicts web portals and cyberinfrastructure that allows for a diversified contributor pool and speeds the pace of acquiring validated specimen-level data. The data review process provides a peer-review filter to incoming data that helps to ensure data quality. The red column (center) depicts a specimen-level database that stores entries accepted by the editors. This specimen-level database could be directly linked to large-scale initiatives such as GBIF, NBII, National Digital Biological Collections Resource, the Encyclopedia of Life and the Tree of Life, GenBank and MorphBank. The green funnel (on right) represents taxon-specific tools that could be developed utilizing such a rich data set
Figure 7 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 7 - Strict consensus of 12 most parsimonious trees (L = 314; ci = 0.28; ri = 0.56). Characters are mapped onto the consensus only if their optimization is not ambiguous and if they are present among all the MPTs. The consensus is used to map homoplasy at the level of characters. Black rectangles represent single, non-homoplasious character state transformations, and white rectangles represent multiple, homoplasious character state transformations. The number depicted above each rectangle represents the character and the number below the rectangle represents the character state. The bigger number below the branches corresponds to Bootstrap values over 50%. The combination of characters for each terminal is not shown. Three important synapomorphies are illustrated in the cladogram: the filiform antennae (3:0), as the single synapomorphy of the tribe, and the number of spermathecal tubes (41:1) plus the terminal position of the accessory gland (49:2), as the synapomorphies supporting a mostly Neotropical clade. These character states are reported for the first time for the tribe. Two shades of gray in the cladogram indicate the subtribe to which the terminals belong (except Nautes). Colors in the terminals indicate their geographic distribution. Below seven terminals the former classification (genus or subgenus) is shown. An asterisk indicates the type species included in the analysis: Tarpela browni and Nautes fervidus.
Figure 6 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 6 - Aedeagal characters (male genitalia) representing the different morphological types found in or sample of Helopini: A evident setae (57: 0) representing the helopiod type (Nabozhenko 2001b, 2002a, 2005), distributed over half of the parameres (58:0), illustrated from Helops caeruleus (Linnaeus), not included in the analysis (lateral view) B evident setae (57:0); representing the catomoid type (Nabozhenko 2006), distributed over two thirds of parameres (58:1) in Nautes fervidus Pascoe C not evident setae over parameres (57:1) representing the nalassoid type (Nabozhenko 2001b, 2002a, 2002b), illustrated from Odocnemis californicus Mannerheim D parameres not convergent (59:1), with blunt apex (62:0) in Helops caeruleus (ventral view) E parameres not convergent (59:1) with weakly constricted apex (61:1) in Nautes fervidus F parameres convergent (59:0), with acute (60:1) not constricted apex (62:1) in O. californicus.
Figure 4 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 4 - Internal morphological characters (female genitalia) representing the different morphological types found in our sample of Helopini ag = accessory gland, sp = spermatheca, st = spermathecal tube(s), cd = common duct of accessory gland and spermatheca, v = vagina, ov = oviduct: A infundibular vagina (40:0), single spermatheca branched near its base (41:0, 42:0) and accessory gland in the common duct (49:1) illustrated from Helops insignis Germar representing the helopiod type (Nabozhenko 2001b, 2002a, 2002b, 2005) B vagina strongly curved and narrowed before the apex (40:1), single spermatheca not branched near the base (41:0, 42:1) illustrated from Nalassus plebejus Küster representing the nalassoid type (Nabozhenko 2001b, 2002a, 2002b) C female genital tract with three serial spermathecal tubes (41:1) close to each other (43:0) and terminal accessory gland (49:2) in Helops farctus LeConte, illustrating the pattern previously reported for some Pimeliinae species (Doyen 1994), here reported for the first time in Tenebrioninae D distant spermathecal tubes (43:1) in Helops perforatus Horn with terminal accessory gland (49:2), illustrating a pattern described here for the first time. Total length of the accessory gland is not represented in A and B.
Figure 2 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 2 - Examples of non-traditional external characters in Helopini: A reduced recurrent cell (rc) (26:0) in fully developed wing (25:1) of Helops californicus Mannerheim B wide recurrent cell (rc) (26:1) in fully developed wing (25:1) of Tarpela aerifera Allard C head width and interocular width (6:0) and pronotum width and length (18:0) in Tarpela costata Champion 1887, showing a gibbous pronotum disk surface (8:0), with very dense (9:0) and very deep (10:0) pronotum punctures.
Figure 1 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 1 - Examples of external characters (mainly diagnostic), traditionally used in Helops, Tarpela and Nautes, (number of character: character state): A broad apical antennomere (5:0), shorter than the third antennomere (4:0) illustrated from Helops aereus Germar B filiform apical antennomeres (5:2), as long as the third antennomere (4:1) illustrated from Nautes fervidus Pascoe C male maxillary palps with length of inner edge 2.6–2.9 times the length of posterior edge (7:2) illustrated from Nautes chrysomeloides Champion D third lobate segment of male tarsi (30:0) and short fourth tarsomere (31:0) illustrated from Nautes fervidus E not prominent prosternum (27:1) in Helops cisteloides Germar F prominent-acute prosternum (27:0) in Nautes fervidus.
Figure 3 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 3 - Internal morphological characters (female genitalia) in Helopini: A length of paraproct (pp) three or more times length of coxite (cx) (39:0) illustrated from the ovipositor of Helops cisteloides Germar B long gonostyles (gt) (37:1) with wide apex (38:1), represented by the ovipositor of Odocnemis exaratus Germar, not included in the analysis C reduced gonostyles (37:0), with base as wide as apex (38:0) represented by the ovipositor of Tarpela micans (Fabricius), not included in the analysis D blunt, narrow apex of eighth sternite (33:0), not evident arms (34:1) and not dilated distal end of the spiculum ventrale (sv) (35:1) illustrated from Helops cisteloides E trapeziform apex of eighth sternite (33:1), evident arms (34:0) and dilated distal end of spiculum ventrale (35:0), represented by sclerite of Odocnemis exaratus.
Figure 5 from: Cifuentes-Ruiz P, Zaragoza-Caballero S, Ochoterena-Booth H, Morón Rios M (2014) A preliminary phylogenetic analysis of the New World Helopini (Coleoptera, Tenebrionidae, Tenebrioninae) indicates the need for profound rearrangements of the classification. ZooKeys 415: 191-216. https://doi.org/10.3897/zookeys.415.6882
Figure 5 - Internal morphological characters (male genitalia) representing the different morphological types found in our sample of Helopini: A pleural rods of gastral spicula close only at the end (50:2), representing the nalassoid type (Nabozhenko 2001b, 2002a), illustrated from Stenomax aeneus (Scopoli) B pleural rods of gastral spicula close towards the middle of their length (50:0), representing the helopiod type (Nabozhenko 2001b, 2002a, 2005), illustrated from Tarpela micans (Fabricius), not included in the analysis C narrow and acute lobes of eighth sternite (54:1) and deep notch (52:0) in Helops farctus LeConte D broad lobes of eighth sternite (54:0) and shallow notch (52:1) in Stenomax aeneus E projected anterior part of basal piece (basal piece "J" shaped) in Odocnemis californicus Mannerheim (67:0) F anterior part of basal piece not projected in Nautes fervidus Pascoe (67:1), character state used for the first time in this study.
Figure 1 from: Gutiérrez EE, Pine RH (2015) No need to replace an "anomalous" primate (Primates) with an "anomalous" bear (Carnivora, Ursidae). ZooKeys 487: 141-154. https://doi.org/10.3897/zookeys.487.9176
Figure 1 - The maximum-likelihood tree resulting from the analysis of sequence data for the mitochondrial 12S ribosomal RNA gene under its best–fitting model (GTR + G, ln-likelihood - 3123.29336). Only non-negligible nodal support is indicated. Bootstrap values for the maximum-likelihood analysis are indicated above branches, whereas Bayesian posterior probabilities are indicated below branches. See Acknowledgments for photo credits.
Fig 4 from: Riede K (2018) Acoustic profiling of Orthoptera: present state and future needs. Journal of Orthoptera Research 27(2): 203-215. https://doi.org/10.3897/jor.27.23700
Fig 4 A data warehouse for sound management. The scheme illustrates elements and workflow for acoustic profiling of Orthoptera. Songs are sampled either by recording individual songsters (Targeted Recordings), or entire acoustic scenes, each of which could contain several Orthoptera songs. Targeted recordings are treated like specimens, with time and locality stamps and, preferably, a voucher specimen. All databases listed in Table 1 are designed to store individual recordings. These distributed databases could be federated via ABCD- or Darwin-protocol. Soundscapes require distinct data management of large multimedia files. Orthoptera songs could be extracted manually or semi-automatically as sound snippets, and eventually be identified (ID) manually, or using automatic sound recognition algorithms (ASR). Many snippets can be extracted from each scene, resulting in a one-to-many relationship between scenes and snippets.
Fig 2 from: Riede K (2018) Acoustic profiling of Orthoptera: present state and future needs. Journal of Orthoptera Research 27(2): 203-215. https://doi.org/10.3897/jor.27.23700
Fig 2 The SYSTAX database. Screenshot of the new SYSTAX user interface, to be released under www.systax.org. A search for the Neotropical tettigoniid genus Anaulacomera recovers several sound recordings from a voucher specimen of a hitherto undescribed species, documented by photographs. Faceting allows searching by images or sounds exclusively.
Fig 1 from: Riede K (2018) Acoustic profiling of Orthoptera: present state and future needs. Journal of Orthoptera Research 27(2): 203-215. https://doi.org/10.3897/jor.27.23700
Fig 1 Web-based sound analysis tool for the Macaulay Sound Library, Cornell Lab (https://www.macaulaylibrary.org). Macaulay Library provides more than 400,000 playable audio files (http://macaulaylibrary.org/index.do), and even permits spectrographic online visualization using RavenViewer as a free browser plugin (http://www.birds.cornell.edu/brp/software/sound-analysis-tools). The example shows a recording of a Virtuoso katydid by T. Walker, who provided most of the Orthoptera sound recordings for this sound library. For further details, see text.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.