Andrey Fedorov fedorov
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fedorov
/ A.repeatability.7.19.16.R
Created
September 29, 2017 21:16
Repeatability analysis R script
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| rm(list=ls()) | |
| library(ICC) | |
| dat<-read.table('data20160211.csv',header=TRUE,sep=';') | |
| library(outliers); library(lme4); library(lmerTest); library(boot) | |
| library(multcomp) | |
| types<-c("ADC1400", "SUB", "T2AX") | |
| structures<-c("PeripheralZone", "TumorROI_PZ_1", "NormalROI_PZ_1", | |
| "WholeGland") | |
| get.dat<-function(quantity, structures, types, dat){ | |
| X<-dat[dat$Quantity==quantity & !is.na(dat$Value) & |
fedorov
/ crash_trace.txt
Created
September 6, 2018 15:59
Slicer crash on invoking "Extension Manager", macOS, Sept 6, 2018, nightly
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| Process: Slicer [48459] | |
| Path: /Applications/Slicer.app/Contents/MacOS/Slicer | |
| Identifier: ??? | |
| Version: ??? (4.9.0-2018-09-04) | |
| Code Type: X86-64 (Native) | |
| Parent Process: ??? [1] | |
| Responsible: Slicer [48459] | |
| User ID: 501 | |
| Date/Time: 2018-09-06 11:58:11.619 -0400 |
fedorov
/ stack_trace.txt
Created
June 28, 2019 18:27
Slicer Jun 27 2019 crash after installing SimpleITK with pip
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| Process: Slicer [78341] | |
| Path: /Applications/Slicer.app/Contents/MacOS/Slicer | |
| Identifier: ??? | |
| Version: ??? (4.11.0-2019-06-27) | |
| Code Type: X86-64 (Native) | |
| Parent Process: zsh [738] | |
| Responsible: Slicer [78341] | |
| User ID: 501 | |
| Date/Time: 2019-06-28 14:19:39.643 -0400 |
fedorov
/ firebase.json
Created
November 15, 2021 22:44
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| { | |
| "hosting": { | |
| "public": "public", | |
| "headers": [ | |
| { | |
| "source": "/**", | |
| "headers": [ | |
| { | |
| "key": "Cache-Control", | |
| "value": "no-cache, no-store, must-revalidate" |
fedorov
/ google.js
Last active
June 2, 2022 14:25
This the template OHIF Viewer configuration file for connecting with Google Healthcare DICOM. See tutorial here: https://tinyurl.com/idc-ohif-gcp
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| window.config = { | |
| routerBasename: '/', | |
| enableGoogleCloudAdapter: true, | |
| // enable series filter parameter | |
| filterQueryParam: true, | |
| healthcareApiEndpoint: 'https://healthcare.googleapis.com/v1', | |
| servers: { | |
| // This is an array, but we'll only use the first entry for now | |
| dicomWeb: [], | |
| }, |
fedorov
/ tcga_nlst_sm_size.sql
Last active
April 6, 2022 03:43
Total size of TCGA and NLST DICOM SM data in IDC v8 release
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| WITH | |
| all_new_sm AS ( | |
| SELECT | |
| collection_id, | |
| COUNT(DISTINCT(SeriesInstanceUID)) AS num_series, | |
| ROUND(SUM(instance_size)/(1024*1024*1024),2) AS size_GB | |
| FROM | |
| `bigquery-public-data.idc_v8.dicom_all` | |
| WHERE | |
| (collection_id LIKE "tcga%" |
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| REF TYPE DIGEST SIZE PLATFORMS LABELS | |
| docker.io/coredns/coredns:1.6.6 application/vnd.docker.distribution.manifest.list.v2+json sha256:41bee6992c2ed0f4628fcef75751048927bcd6b1cee89c79f6acb63ca5474d5a 12.3 MiB linux/amd64,linux/arm,linux/arm64,linux/ppc64le,linux/s390x io.cri-containerd.image=managed | |
| docker.io/coredns/coredns@sha256:41bee6992c2ed0f4628fcef75751048927bcd6b1cee89c79f6acb63ca5474d5a application/vnd.docker.distribution.manifest.list.v2+json sha256:41bee6992c2ed |
fedorov
/ volview_manifest.json
Created
March 16, 2023 14:59
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| {"resources":[{"url":"gs://public-datasets-idc/0ec2bdbd-7d0d-4799-922a-4b8b236e72d6.dcm"},{"url":"gs://public-datasets-idc/e4434a95-0975-4e0a-99e0-d22be997ae3f.dcm"},{"url":"gs://public-datasets-idc/03dc371b-6daa-4756-ac5b-0d52c696d4bc.dcm"},{"url":"gs://public-datasets-idc/95326543-5ed0-4a19-b284-9d464e65ff0e.dcm"},{"url":"gs://public-datasets-idc/015ee421-306f-4557-884e-f90cab21a48e.dcm"},{"url":"gs://public-datasets-idc/6b74f655-5282-4d10-9321-e249c49e476b.dcm"},{"url":"gs://public-datasets-idc/cdbabc62-bb88-4713-a6d1-55f3787be2fc.dcm"},{"url":"gs://public-datasets-idc/f5f06c08-75d8-4dac-a7e5-1c807bc25acf.dcm"},{"url":"gs://public-datasets-idc/5ff094ea-35db-4f44-8216-ecc8e9c5c66c.dcm"},{"url":"gs://public-datasets-idc/26a7f25b-7c03-471f-8b96-3704a07329e0.dcm"},{"url":"gs://public-datasets-idc/d4c04b46-482c-4c16-80ee-63dba8ddf5da.dcm"},{"url":"gs://public-datasets-idc/d5f129f8-25ec-4b34-8f79-afa113157848.dcm"},{"url":"gs://public-datasets-idc/9f60e8a4-f926-4397-9d37-0d5a15223d53.dcm"},{"url":"gs://public-da |
fedorov
/ idc_nc_series_sample.json
Last active
March 16, 2023 21:46
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| { | |
| "resources": [ | |
| { | |
| "url": "gs://public-datasets-idc/3c8654c6-e4fe-4502-a4de-37a0c819caa7.dcm" | |
| }, | |
| { | |
| "url": "gs://public-datasets-idc/5253a384-150c-4b57-bdc3-28b5d4454924.dcm" | |
| }, | |
| { | |
| "url": "gs://public-datasets-idc/dc78c16c-dedf-4cbf-af8d-9a61bc043b83.dcm" |
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| {"resources":[{"url":"gs://public-datasets-idc/d3029cc5-bfb0-4e63-9695-9856a9bc027b.dcm"},{"url":"gs://public-datasets-idc/e3f73acd-9378-4710-9fcb-15f6946d8d88.dcm"},{"url":"gs://public-datasets-idc/77f08f0c-18a8-46d2-9fc7-095b0e8aeeda.dcm"},{"url":"gs://public-datasets-idc/0f1f259f-7ce0-4f73-bf60-c7f56f3fc89e.dcm"},{"url":"gs://public-datasets-idc/c9d9e2dc-bcc3-452e-897a-6772cc9b297c.dcm"},{"url":"gs://public-datasets-idc/a44f3227-5f26-4ed3-bd31-9c60de0f9890.dcm"},{"url":"gs://public-datasets-idc/7e7f7685-8cf6-48cc-ae20-b815bd536024.dcm"},{"url":"gs://public-datasets-idc/ab42ef89-a9c7-4680-83b0-3e3ebcae6561.dcm"},{"url":"gs://public-datasets-idc/e5f1cbd9-74ab-4b82-96ba-9071fed1b98f.dcm"},{"url":"gs://public-datasets-idc/b6660113-6879-4143-972d-58e43ef8ea82.dcm"},{"url":"gs://public-datasets-idc/6705d766-14d9-4fdf-9375-48110626040e.dcm"},{"url":"gs://public-datasets-idc/db5a8629-1b2e-4533-9bed-4c70fe1e3de4.dcm"},{"url":"gs://public-datasets-idc/08f0f944-377d-4161-ac2f-68ddf8a45fdb.dcm"},{"url":"gs://public-da |