Neuron metrics for all neurons in the hemibrain dataset
Source:R/hemibrain_data.R
hemibrain_metrics.RdThis data.frame give metrics for neurons, such as cable_lengths and pre/post synapse numbers and densities,
broken down by putative compartment. E.g. axons versus dendrite. This has been calculated for neurons across the hemibrain dataset,
hemibrain:v1.0.1. The file used to generate this can be found in this package,
as data-raw/hemibrain_split_all_neurons.R. Neurons were split as described by hemibrain_precomputed_splitpoints. Note
that the first two columns, pre and post are generated by neuPrint. They differ from similar numbers in other columns of
this data.frame because 'pre' is later given as the numbers of outgoing connections (not presynapses) and some erroneous pre/post synapses will
have been removed by hemibrain_skeleton_check. Overlap locality is calculated as the 'overlap score' (Frechter et al. 2019, eLife) between
a neuron's axon and dendrite.
hemibrain_metrics hemibrain_metrics_polypre_centrifugal_distance hemibrain_metrics_polypre_centrifugal_synapses
Format
An object of class data.frame with 25114 rows and 63 columns.
An object of class data.frame with 22567 rows and 30 columns.
An object of class data.frame with 24693 rows and 63 columns.
Source
https://elifesciences.org/articles/44590
References
Frechter, Shahar, Alexander Shakeel Bates, Sina Tootoonian, Michael-John Dolan, James D. Manton, Arian Rokkum Jamasb, Johannes Kohl, Davi Bock, and Gregory Sxe Jefferis. 2019. “Functional and Anatomical Specificity in a Higher Olfactory Centre.” eLife 8 (May). https://doi.org/10.7554/eLife.44590.
See also
Examples
#> cellBodyFiber bodyid pre post upstream downstream status #> 5812980768 94 5812980768 621 2235 2235 4774 2 #> 480918798 104 480918798 28 176 176 5337 2 #> 599674785 93 599674785 578 2783 2783 4664 2 #> 358424052 79 358424052 833 28 28 1210 2 #> 326530038 141 326530038 909 2245 2245 2481 2 #> 203594175 122 203594175 1128 1971 1971 3136 2 #> statusLabel cropped name type voxels notes soma #> 5812980768 5 1 2753 KCab-sc 4099 NA 1 #> 480918798 5 1 3538 PDL13f_c_pct 5584 NA 2 #> 599674785 5 1 2751 KCab-sc 10340 NA 2 #> 358424052 5 1 2002 FB7H 17600 395 1 #> 326530038 5 1 6892 PDM22c_pct 4460 NA 2 #> 203594175 5 1 2311 FQ12_a 3441 177 2 #> ito_lee_lineage ito_lee_hemilineage hartenstein_lineage #> 5812980768 43 67 90 #> 480918798 34 55 76 #> 599674785 42 66 89 #> 358424052 9 20 52 #> 326530038 18 42 87 #> 203594175 18 42 87 #> hartenstein_hemilineage putative.classic.transmitter #> 5812980768 134 1 #> 480918798 116 4 #> 599674785 133 1 #> 358424052 85 5 #> 326530038 131 5 #> 203594175 131 5 #> putative.other.transmitter FAFB.match FAFB.match.quality layer #> 5812980768 2 2240 3 5078 #> 480918798 2 968 1 590 #> 599674785 2 2240 3 1870 #> 358424052 2 2240 3 11486 #> 326530038 2 2240 3 7444 #> 203594175 2 2240 3 10000 #> ct.layer overlap_locality position point X Y Z soma.edit #> 5812980768 3 NA 684 root 10372 12128 12116 TRUE #> 480918798 3 NA 7 root 8416 22008 4650 FALSE #> 599674785 3 NA 1921 root 11448 13554 9230 FALSE #> 358424052 7 1589 328 root 29797 31023 23871 TRUE #> 326530038 6 NA 12181 root 19205 12326 13177 FALSE #> 203594175 6 NA 1405 root 18571 12005 12002 FALSE #> cut truncated manual_edit splittable skeletonization checked #> 5812980768 FALSE FALSE FALSE TRUE good 0 #> 480918798 FALSE FALSE TRUE TRUE major errors 1 #> 599674785 FALSE FALSE FALSE TRUE good 1 #> 358424052 FALSE FALSE FALSE TRUE good 0 #> 326530038 FALSE FALSE FALSE TRUE good 0 #> 203594175 FALSE FALSE FALSE TRUE good 0 #> user time note priority edited.cable orig.soma #> 5812980768 flyconnectome 1587120331.87611 none 0 0 FALSE #> 480918798 IT 1596121300 none 3 0 TRUE #> 599674785 JH 1591330875 none 2 0 TRUE #> 358424052 flyconnectome 1587120331.87611 none 0 0 FALSE #> 326530038 flyconnectome 1587120331.87611 none 0 0 TRUE #> 203594175 flyconnectome 1587120331.87611 none 0 0 TRUE #> orig.cut soma.checked cbf total_outputs total_inputs #> 5812980768 FALSE TRUE PDL03 737 411 #> 480918798 FALSE TRUE PDL13 959 112 #> 599674785 FALSE TRUE PDL02 710 645 #> 358424052 FALSE TRUE unknown 1800 1008 #> 326530038 FALSE TRUE PDM22 2972 4122 #> 203594175 FALSE TRUE PDM03 380 342 #> axon_outputs dend_outputs axon_inputs dend_inputs #> 5812980768 231 286 117 175 #> 480918798 912 27 83 29 #> 599674785 519 58 402 153 #> 358424052 1673 120 846 157 #> 326530038 2264 704 1660 2415 #> 203594175 307 45 31 289 #> total_outputs_density total_inputs_density axon_outputs_density #> 5812980768 1.1657676 0.6501092 1.9553200 #> 480918798 1.0857725 0.1268055 2.5803720 #> 599674785 0.7475305 0.6790946 1.5012897 #> 358424052 0.9851495 0.5516837 1.7191172 #> 326530038 0.3981166 0.5521657 0.8698357 #> 203594175 0.4307125 0.3876412 2.1063067 #> dend_outputs_density axon_inputs_density dend_inputs_density #> 5812980768 1.2005536 0.9903569 0.7346045 #> 480918798 0.1912590 0.2348365 0.2054263 #> 599674785 0.2494194 1.1628487 0.6579513 #> 358424052 0.2488725 0.8693205 0.3256081 #> 326530038 0.1983176 0.6377771 0.6803083 #> 203594175 0.1386399 0.2126890 0.8903761 #> total_length axon_length dend_length pd_length segregation_index #> 5812980768 632.2015 118.1392 238.2234 35.60497 0.001535072 #> 480918798 883.2421 353.4374 141.1698 25.92909 0.090286543 #> 599674785 949.7940 345.7028 232.5400 238.69601 0.037495571 #> 358424052 1827.1338 973.1739 482.1747 110.84933 0.015147438 #> 326530038 7465.1498 2602.7904 3549.8610 182.18083 0.095015986 #> 203594175 882.2591 145.7528 324.5819 186.84728 0.493331090# }
