Package index • birddog

Ingest

read_openalex(): Read and Process OpenAlex data
read_wos(): Read Web of Science exported files
get_openalex_fields(): Get Fields from OpenAlex for Work IDs

Network and groups (stock)

sniff_network(): Create Citation Networks from Bibliographic Data
sniff_components(): Identify and Analyze Network Components
sniff_groups(): Detect and analyze groups in a scientific network
sniff_groups_cumulative(): Analyze Cumulative Network Groups Over Time
sniff_groups_lineage(): Per-group lineage data
sniff_groups_attributes(): Calculate and Visualize Group Attributes from Scientific Networks
sniff_groups_cumulative_citations(): Calculate Cumulative Citations by Group and Year
sniff_groups_hubs(): Identify Hub Papers in Research Groups
sniff_groups_influence() is_influence() print(<birddog_influence>): Measure directed citation influence between research groups

Group content

sniff_groups_keywords(): Extract representative keywords from grouped nodes
sniff_groups_terms(): Extract and Analyze Key Terms from Research Groups
sniff_groups_stm_prepare(): Prepare Text Data and Analyze Topic Models
sniff_groups_stm_run(): Run Structural Topic Modeling Analysis

Indicators

sniff_cct(): Calculate Citation Cycle Time (CCT) indicator
sniff_entropy(): Calculate Entropy Based on Keywords Over Time
sniff_key_route(): Identify Key Routes in Citation Networks
data_state_thresholds(): Data-driven, outlier-robust dynamic-state thresholds
fixed_state_thresholds(): Fixed-constant thresholds for dynamic-state classification

Trajectory detection (flow)

sniff_trajectory_dag(): Build the soft cumulative-clustering trajectory DAG
sniff_trajectory_braid(): Braid: the canonical detector of trajectories (central + absorbed)
sniff_trajectory_channel(): Detect channel trajectories by global optimal-path routing
is_flow(): Is this a trajectory flow object?
validate_flow(): Validate the trajectory flow contract
subset(<birddog_flow>): Subset a trajectory flow, preserving the contract
sniff_trajectory_coherence(): Appraise the content coherence of a trajectory flow
sniff_trajectory_comparison(): Compare trajectory detectors by content coherence

Trajectory analysis

sniff_trajectory_dynamics(): Dynamic-state indicators and classification for flow trajectories
sniff_trajectory_cct(): Per-year citation cycle time (renewal pace) along each flow trajectory
sniff_trajectory_entropy(): Per-year keyword diversity (Pielou's J') along each flow trajectory
sniff_trajectory_hubs(): Hub roles aggregated to each flow trajectory (provincial vs bridging)
sniff_trajectory_community(): Community breadth (distinct authors) of each flow trajectory
sniff_trajectory_emergence_owners(): Roll trajectory emergence up to the authors who own it
sniff_trajectory_self_sufficiency(): Self-sufficiency of each central trajectory
sniff_trajectory_destination(): Where a trajectory's terminal cohort goes
sniff_trajectory_formation(): Trajectories that fed into a target (confluence)
sniff_trajectory_contribution(): Documents an intermediate trajectory contributes to a target in a given year
sniff_trajectory_confluence(): Build the render-ready confluence forest of the soft DAG

Visualization

plot_groups_influence_matrix(): Plot the directed group-influence matrix (heatmap)
plot_groups_influence_network(): Plot the group-influence network (the net-influence spine)
plot_groups_lineage_2d(): Visualize 2D Technological Trajectories from Group Evolution
plot_groups_lineage_3d(): Visualize 3D Technological Trajectories from Group Evolution
plot_groups_map(): Plot the stock map: the complete citation network coloured by final group
plot_groups_map_animation(): Animate the stock map: the citation network forming year by year
plot_groups_map_interactive(): Interactive stock map: the citation network as a plotly HTML widget
plot_groups_per_year(): Plot groups per year: the clustering fan converging to the final groups
plot_trajectory_confluence(): Plot the trajectory confluence (how the central trajectories form)
plot_trajectory_confluence_interactive(): Interactive trajectory confluence (plotly): hover a stream for its trajectory
plot_trajectory_confluence_matrix(): Plot the trajectory confluence matrix (finals vs intermediates)
plot_trajectory_dag(): Plot the soft trajectory DAG (all intermediate nodes)
plot_trajectory_dag_interactive(): Interactive trajectory DAG (plotly): hover a node for its trajectory
plot_trajectory_dispersion(): Plot where a stagnant trajectory's cohort dispersed (its dispersion fan)
plot_trajectory_dynamics(): Strategic map of trajectory dynamic states
plot_trajectory_dynamics_interactive(): Interactive strategic map of trajectory dynamic states (plotly)
plot_trajectory_formation(): Plot the trajectories that fed into a target (confluence timeline)
plot_trajectory_lines_2d(): Plot the global trajectories as 2D variable-width lines
plot_trajectory_lines_3d(): Plot the global trajectories as 3D variable-width lines

Utilities

mixed_sort(): Natural sort for alphanumeric strings
birddog birddog-package: birddog: sniffing emergence and trajectories in academic papers and patents