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0875b19fa1dfbab200d4a622d00f9a0f7ea946cfce99b81260dfbffc12c8a05f
Stata
305
17
onbreak {quit -force} onerror {quit -force} asim -t 1ps +access +r +m+ila_0 -L xilinx_vip -L xil_defaultlib -L xpm -L xilinx_vip -L unisims_ver -L unimacro_ver -L secureip -O5 xil_defaultlib.ila_0 xil_defaultlib.glbl do {wave.do} view wave view structure do {ila_0.udo} run -all endsim quit -force
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Stata
305
1
vopt -64 +acc -l elaborate.log -L xilinx_vip -L xil_defaultlib -L xpm -L smartconnect_v1_0 -L axi_protocol_checker_v2_0_3 -L axi_vip_v1_1_3 -L processing_system7_vip_v1_0_5 -L xilinx_vip -L unisims_ver -L unimacro_ver -L secureip -work xil_defaultlib xil_defaultlib.ila_0 xil_defaultlib.glbl -o ila_0_opt
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Stata
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vlib work vlib msim vlib msim/xil_defaultlib vmap xil_defaultlib msim/xil_defaultlib vlog -work xil_defaultlib -64 \ "../../../../project_1_base.srcs/sources_1/ip/clk_wiz_0/clk_wiz_0_clk_wiz.v" \ "../../../../project_1_base.srcs/sources_1/ip/clk_wiz_0/clk_wiz_0.v" \ vlog -work xil_defaultlib "glbl.v"
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Stata
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vlib work vlib msim vlib msim/xil_defaultlib vmap xil_defaultlib msim/xil_defaultlib vlog -work xil_defaultlib -64 -incr \ "../../../../project_1_base.srcs/sources_1/ip/clk_wiz_0/clk_wiz_0_clk_wiz.v" \ "../../../../project_1_base.srcs/sources_1/ip/clk_wiz_0/clk_wiz_0.v" \ vlog -work xil_defaultlib "glbl.v"
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Stata
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onbreak {quit -f} onerror {quit -f} vsim -voptargs="+acc" -t 1ps -L xilinx_vip -L xil_defaultlib -L xpm -L xilinx_vip -L unisims_ver -L unimacro_ver -L secureip -lib xil_defaultlib xil_defaultlib.ila_0 xil_defaultlib.glbl do {wave.do} view wave view structure view signals do {ila_0.udo} run -all quit -force
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Stata
347
16
onbreak {quit -f} onerror {quit -f} vsim -voptargs="+acc" -t 1ps -pli "C:/Xilinx/Vivado/2015.4/lib/win64.o/libxil_vsim.dll" -L unisims_ver -L unimacro_ver -L secureip -L xil_defaultlib -lib xil_defaultlib xil_defaultlib.clk_wiz_0 xil_defaultlib.glbl do {wave.do} view wave view structure view signals do {clk_wiz_0.u...
b90ccfcc93317dbfa223ec498927b3c95dc3cd2ae00d9b081adc0049bfcbc2fc
Stata
627
1
vopt -64 +acc -l elaborate.log -L xilinx_vip -L xil_defaultlib -L xpm -L axi_infrastructure_v1_1_0 -L smartconnect_v1_0 -L axi_protocol_checker_v2_0_3 -L axi_vip_v1_1_3 -L processing_system7_vip_v1_0_5 -L lib_cdc_v1_0_2 -L proc_sys_reset_v5_0_12 -L generic_baseblocks_v2_1_0 -L fifo_generator_v13_2_2 -L axi_data_fifo_v2...
aec8ce543f95e71be9c751bf6d852f6c03e163476a847d1080512114a11c77a7
Stata
628
17
onbreak {quit -force} onerror {quit -force} asim -t 1ps +access +r +m+system -L xilinx_vip -L xil_defaultlib -L xpm -L axi_infrastructure_v1_1_0 -L smartconnect_v1_0 -L axi_protocol_checker_v2_0_3 -L axi_vip_v1_1_3 -L processing_system7_vip_v1_0_5 -L lib_cdc_v1_0_2 -L proc_sys_reset_v5_0_12 -L generic_baseblocks_v2_1_...
d7af034f6ed4e28d66ef5b6e51e31faf9b64924c902d378a82bb9f01f813a986
Stata
637
16
onbreak {quit -f} onerror {quit -f} vsim -voptargs="+acc" -t 1ps -L xilinx_vip -L xil_defaultlib -L xpm -L axi_infrastructure_v1_1_0 -L smartconnect_v1_0 -L axi_protocol_checker_v2_0_3 -L axi_vip_v1_1_3 -L processing_system7_vip_v1_0_5 -L lib_cdc_v1_0_2 -L proc_sys_reset_v5_0_12 -L generic_baseblocks_v2_1_0 -L fifo_ge...
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Stata
1,798
36
vlib work vlib riviera vlib riviera/xilinx_vip vlib riviera/xil_defaultlib vlib riviera/xpm vmap xilinx_vip riviera/xilinx_vip vmap xil_defaultlib riviera/xil_defaultlib vmap xpm riviera/xpm vlog -work xilinx_vip -sv2k12 "+incdir+../../../ip/ila_0/hdl/verilog" "+incdir+C:/Xilinx/Vivado/2018.2/data/xilinx_vip/includ...
353c640c893d898cacf3e19204e08579859da409cddc5670e6966f1a9d543c06
Stata
1,812
36
vlib work vlib activehdl vlib activehdl/xilinx_vip vlib activehdl/xil_defaultlib vlib activehdl/xpm vmap xilinx_vip activehdl/xilinx_vip vmap xil_defaultlib activehdl/xil_defaultlib vmap xpm activehdl/xpm vlog -work xilinx_vip -sv2k12 "+incdir+../../../ip/ila_0/hdl/verilog" "+incdir+C:/Xilinx/Vivado/2018.2/data/xil...
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Stata
2,098
36
vlib questa_lib/work vlib questa_lib/msim vlib questa_lib/msim/xilinx_vip vlib questa_lib/msim/xil_defaultlib vlib questa_lib/msim/xpm vmap xilinx_vip questa_lib/msim/xilinx_vip vmap xil_defaultlib questa_lib/msim/xil_defaultlib vmap xpm questa_lib/msim/xpm vlog -work xilinx_vip -64 -sv -L smartconnect_v1_0 -L axi_p...
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Stata
2,132
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vlib modelsim_lib/work vlib modelsim_lib/msim vlib modelsim_lib/msim/xilinx_vip vlib modelsim_lib/msim/xil_defaultlib vlib modelsim_lib/msim/xpm vmap xilinx_vip modelsim_lib/msim/xilinx_vip vmap xil_defaultlib modelsim_lib/msim/xil_defaultlib vmap xpm modelsim_lib/msim/xpm vlog -work xilinx_vip -64 -incr -sv -L smar...
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Stata
14,661
114
vlib work vlib riviera vlib riviera/xilinx_vip vlib riviera/xil_defaultlib vlib riviera/xpm vlib riviera/axi_infrastructure_v1_1_0 vlib riviera/smartconnect_v1_0 vlib riviera/axi_protocol_checker_v2_0_3 vlib riviera/axi_vip_v1_1_3 vlib riviera/processing_system7_vip_v1_0_5 vlib riviera/lib_cdc_v1_0_2 vlib riviera/proc...
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Stata
14,723
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vlib work vlib activehdl vlib activehdl/xilinx_vip vlib activehdl/xil_defaultlib vlib activehdl/xpm vlib activehdl/axi_infrastructure_v1_1_0 vlib activehdl/smartconnect_v1_0 vlib activehdl/axi_protocol_checker_v2_0_3 vlib activehdl/axi_vip_v1_1_3 vlib activehdl/processing_system7_vip_v1_0_5 vlib activehdl/lib_cdc_v1_0...
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Stata
15,606
114
vlib questa_lib/work vlib questa_lib/msim vlib questa_lib/msim/xilinx_vip vlib questa_lib/msim/xil_defaultlib vlib questa_lib/msim/xpm vlib questa_lib/msim/axi_infrastructure_v1_1_0 vlib questa_lib/msim/smartconnect_v1_0 vlib questa_lib/msim/axi_protocol_checker_v2_0_3 vlib questa_lib/msim/axi_vip_v1_1_3 vlib questa_l...
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Stata
15,766
114
vlib modelsim_lib/work vlib modelsim_lib/msim vlib modelsim_lib/msim/xilinx_vip vlib modelsim_lib/msim/xil_defaultlib vlib modelsim_lib/msim/xpm vlib modelsim_lib/msim/axi_infrastructure_v1_1_0 vlib modelsim_lib/msim/smartconnect_v1_0 vlib modelsim_lib/msim/axi_protocol_checker_v2_0_3 vlib modelsim_lib/msim/axi_vip_v1...
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niconn
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# Tools
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# LungHist700
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# Cryptojacking
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# 2024GliaContacts
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# WaveformAnalysis
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# FDANet remote sensing
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# tinnitus_predictions
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# familiarizationWithMusic
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# Bernou2024 et al. eLife
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# AREND-Code-Implementation
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# BrainQCNet_paper_results
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# Probabilistic-Attention-Map
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# flexible_decision_making_rnn
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# Head-to-Head Blood Test Study
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Cambridge cichlids ==================
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# predicting-court-decisions-on-child-custody
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# transcriptomics basic transcriptomic analysis
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# Bibineyshvili_2024 Data and associated plot code
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# flexible_decision_making_rats %%% DONE Figure1c
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python-scripts ============== Utility Python scripts.
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# tau_mts Visualization code for the tau map6 project.
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# SNLab_ephys Code repository for internal lab sharing
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# ZH2024 Simulation code accompanying Zhang et al., 2024
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Please refer to the instructions on usage of the repository.
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# surflay Create surface and slice-based layouts of overlays.
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The data analysed with this code is here: https://osf.io/3d9r2/
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# rootlets_hPCA Rootlets Hierarchical Principal Component Analysis
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# Publication_scripts Contains scripts developed and used for published work.
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# Bohm_et_al_2024 Raw data for Böhm & Judkewitz 2024 volumetric voltage imaging
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# econometrics Repositorio con implementacion de ecuaciones simultaneas en pytorch
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# CAIDE_APOE Investigating the effect of CAIDE and APOE on AD in diverse populations
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# fragile-x-manuscript-2024 Data and code supporting Quiver Bioscience's 2024 manuscript
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polyssifier =========== run a multitude of classifiers on your data and get an AUC report
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# WT_E13.5_AntPalate_scRNAseq_Ozekin scRNA sequencing analysis workflow from Ozekin et al. 2023
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# ACSConv Moved to https://github.com/HINTLab/ACSConv. This fork is only kept for link compatibility.
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GUAN et al.2022_PCCD note book 1 related to STAR methods PCCD (positive cell cluster detection) method
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# brainnetcnnVis_pytorch Pytorch implementation of BrainNetCNN (Kawahara et al. 2016) + visualization method
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# Alcohol_PRS [![DOI](https://zenodo.org/badge/760658415.svg)](https://zenodo.org/doi/10.5281/zenodo.12773329)
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# BBBP_CLQ A Transparent Machine Learning Model To Understand Drugs Permeability Through The Blood Brain Barrier
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# prep-childmind-eeg A basic preprocessing pipeline for the open-source EEG data from the Child Mind Institiute.
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# Planar_cell_polarity Using lattice based agant modelling for studying planar cell polarity in epithelial cells
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# EF_attention_first5years_metaanalysis SourceData and R codes related to this meta-analysis can be accessed here.
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OXASL - FSL based ASL pipeline ============================== For documentation see <https://oxasl.readthedocs.io/>
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# Cell_Segmentation_3D_2024 Segmentation of cells from 3D light sheet microscopy images, especially for 2024 T6SS paper
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The bipolar disorder GWAS risk gene NEK4 modulates circadian fluctuations of murine emotional behaviors and synaptogenesis
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polyssifier =========== run a multitude of classifiers on your data and get an AUC report https://ismav.github.com/polyssifier
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# EF_neurodevelopmental_conditions_Meta_Analysis This repository contains all customised R codes to conduct the meta-analysis.
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# familiarizationWithMusic Cite: [![DOI](https://zenodo.org/badge/322676170.svg)](https://zenodo.org/badge/latestdoi/322676170)
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# Alcohol_PRS [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.12773329.svg)](https://zenodo.org/doi/10.5281/zenodo.12773329)
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# Phishing scam detector Implementation of a research paper on detection of phishing scams on Ethereum transactions using Deep Learning
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# demon GA/aMC training of neural-network feedback-control protocol for Ising magnetization reversal (https://arxiv.org/abs/2211.10853)
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# GATv2EPI This project utilizes the GATv2 (Graph Attention Network version 2) framework to predict enhancer-promoter interactions (EPIs).
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# code-for-SAA-dataprocessing Codes and dataset for Huo and Xu et al. “Hierarchical behavior control by a single class of interneurons”.
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# haussmeister Handling 2-photon imaging and electrophysiology datasets in Python [Documentation](https://neurodroid.github.io/haussmeister)
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Source code of models in the paper "Graph neural processes for molecules: an evaluation on docking scores and strategies to improve generalization".
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Scripts for the paper "Hierarchical annotation of eQTLs enables identification of genes with cell-type divergent regulation" by Przytycki and Pollard.
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# Spatiotemporal modeling reveals high resolution invasion states in glioblastoma This repository includes code to reproduce core analyses in this project.
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# Feynman diagrams for PDL topology Python module to create Feynman diagrams for phase defect line (PDL) topology using NetworkX. ## Authors - Desmond Kabus
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# CO-ML Machine Learning-based Risk Assessment for Cancer Therapy-related Cardiac Dysfunction in 4,300 Longitudinal Oncology Patients ![workflow](workflow.png)
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# Repository Moved This project has been moved to [CoRAL](https://github.com/fungenomics/CoRAL.git). Please visit the new repository for the latest updates and code.
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# xyz-converter Scripts for conversion between the local coordinate system for the pontine nuclei defined by Leergaard et al. 2000 and Waxholm Space for the SD rat brain
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# SI_View Viewer and analysis software for two-photon images acquired using ScanImage Add to the Matlab path. Type h_imstack3. Have tested for MATLAB2014a, 2019a and 2021a
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# Basolateral_amygdala_oscillations_enable_fear_learning_in_a_biophysical_model This repository contains: 1) C++ code for running simulations 2) Matlab files to make figures
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# MGMT_analyses Codes generated and used for the analyses found within "Relationship between glioblastoma location and MGMT promoter methylation percentage" (Sansone et al., 2024)
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# EEG Data Set ## Teiji Sawa, MD, PhD, Kyoto Prefectural University of Medicine <p> July 1, 2024 </p> <p> --------------------------------------------------------------------------</p>
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>Please note that Trinotate is no longer under active development or support as of March 2024. # Trinotate Visit our [wiki](https://github.com/Trinotate/Trinotate/wiki) for documentation.
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# NRB_removal This repository includes the code of the Neural Networks proposed in the the paper "Non-resonant background removal in broadband CARS microscopy using deep-learning algorithms"
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This dataset is available at AMP-PD Knowledge Platform (https://www.amp-pd.org/). The direct link is https://app.terra.bio/#workspaces/amp-pd-public/AMP-PD-In-Terra (select "AMP PD Release 4")
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# gerbil-vocal-dialects Analysis and figure generation code for "Unsupervised discovery of family specific vocal usage in the Mongolian gerbil" https://www.biorxiv.org/content/10.1101/2023.03.11.532197v1
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KWS folder: it is training code for keywords spotting task, training_ADCquant_noise.py is main file. NLP folder: it is training code for character prediction task. training_ADCquant_noise.py is main file.
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# network_adaptations_to_IPL_inhibition code repository for self-written scripts to analyze fMRI-TMS data for the manuscript "Inhibition of the inferior parietal lobe triggers state-dependent network adaptations"
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# Locomotor-and-gait-changes-in-the-LPS-model-of-neuroinflammation- Data repository of "Locomotor and gait changes in the LPS model of neuroinflammation are correlated with inflammatory cytokines in blood and brain"
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Code for the analysis conducted in West et al, (Preprint). "Wide-field calcium imaging of cortical activation and functional connectivity in externally- and internally-driven locomotion." DOI: 10.1101/2023.04.10.536261
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# ALD_hyperparameters Code for the paper "Regularizing hyperparameters of interacting neural signals in the mouse cortex reflect states of arousal" Data on Zenodo: 10.5281/zenodo.13343522 Code author: dmitry@benuccilab.net
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# README This repository includes the code for "Single-cell somatic copy number variants in brain using different amplification methods and reference genomes" paper. * Description of the scripts: [README](scripts/README.md)
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# LC_VTA_Reward_Valence Code for the study: Exploring distinct and joint contributions of the Locus Coeruleus and the Substantia Nigra/Ventral Tegmental Area complex to reward and valence processing using high-resolution fMRI
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# infant_rCBF_dynamics This repository provides relevant code for our article titled "Spatiotemporal cerebral blood flow dynamics underlies emergence of the limbic-sensorimotor-association cortical gradient in human infancy".
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# Lines_et_al_eLife Data from Lines et al eLife, "A spatial threshold for astrocyte calcium surge" Datas include results from in vivo calcium imaging of astrcyte subcellular domains and somatic events. Data is in Excel format.
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"# Weng_eLife_2024_scripts" <br> "# scripts for the paper: A robust brain network for sustained attention from adolescence to adulthood that predicts later substance use (https://doi.org/10.7554/eLife.97150.2) "
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# Random Realizations This repo contains the source code for a quarto blog called Random Realizations. The blog was originally created using fastpages (based on jekyl), and housed at [mcb00/blog](https://github.com/mcb00/blog).
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TCRscape - a tool for simultaneous multimodal gene expression and clonotype analysis of single T-cells profiled via the BD Rhapsody system. ![Figure 1](https://github.com/user-attachments/assets/db4e1801-aa90-4bd4-9448-9c1c7f9c3c0c)
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# mGluDimer 01.MDSimSystems: The input structure and parameter files for all-atom MD simulation. 02.CleanedTrajs: The template pdb file (proteinrc.pdb) and the linkage for the MD simulation data (https://doi.org/10.5281/zenodo.13293875).