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weight_ppmi() for Positive Pointwise Mutual
Information weighting of term co-occurrence matrices; sparse-aware
implementation operating on dgCMatrix slots directly, with
smooth parameter for count smoothing before marginal
estimationprint.CMDist()/plot.CMDist() S3
methods (small-multiples plot sorted by score, with sensitivity-interval
error bars when present)CMDist() now returns a data frame with class
c("CMDist", "data.frame") instead of plain
"data.frame", so that
print.CMDist()/plot.CMDist() dispatch on its
output. This is backward compatible — the result is still a real data
frame, and all normal data frame operations ([,
cbind(), dplyr pipelines, etc.) work unchanged — but code
that checks identical(class(x), "data.frame") rather than
inherits(x, "data.frame") will now see the extra classClusterR (used only by get_regions()) and
RSpectra (used only by
doc_centrality(method = "eigen")) moved from Imports to
Suggests with requireNamespace() checks, since neither is
needed for the package’s default/core code paths; text2vec
and igraph remain hard Imports, since they’re required by
CMDist()’s and CoCA()’s default behavior
respectively — an earlier attempt to make these Suggests too broke under
R-hub’s nosuggests check (missing example/test skip guards)
and has been reverteddata-raw/ to .gitignore*.swp/*.swo/*.swn to
.gitignore (replacing an overly narrow
.Rprofile.swp-only entry) and removed a stale, tracked vim
swap filespelling::spell_check_package() and a
coverage threshold (80%; current coverage ~92%) so the coverage job
actually gates instead of only reporting a badgelint CI job with a deliberately curated linter
set (.lintr: object_usage_linter,
seq_linter, vector_logic_linter, and a few
others) rather than lintr’s full default set, which flags ~2,000 mostly
stylistic issues (indentation, line length) on this codebase; added
Language: en-US and
spelling/lintr to Suggestsif (type == "compound" | type == "centroid") →
|| in test_anchors.relco() (safer for scalar
conditions), seq_len(length(x)) →
seq_along(x), any(is.na(x)) →
anyNA(x), and two redundant
== TRUE/!= TRUE comparisons on logical vectors
— no behavior change.prep_cmd_INPUT()’s vocab-growing step into a
single cbind() instead of one per missing concept wordcli::cli_warn(),
matching existing
cli::cli_abort()/cli::cli_inform() usagestop() calls across the package now use
cli::cli_abort() for consistent, better-formatted error
messages (error text is unchanged where tests depend on specific
wording)doc_centrality() and dtm_stats() now warn
on degenerate input (documents with no ties; empty DTMs) instead of
silently returning NaN.terms_stop_* internal helpers
(dtm_stopper()’s term/document frequency and proportion
rules) into one shared .terms_stop_filter(), removing ~100
lines of duplicated Inf-replacement/rounding/threshold logic; no
behavior changedtm_builder()’s friendly error messages (empty last
row; missing doc ID column) are now raised as a single error with the
original Matrix/dplyr error preserved as the
cause, instead of a separate message() immediately followed
by the raw errorCoCA() now warns (previously just informed) when it
overrides an explicit filter_sig = TRUE because too few
directions were suppliedRhpcBLASctl as an Import and pinned BLAS/OpenMP
to a single thread around every text2vec::RWMD call
(CMDist(), doc_similarity(method = "wmd"));
text2vec’s compiled Word Mover’s Distance code can deadlock
under a multi-threaded BLAS (e.g. OpenBLAS) due to nested OpenMP
thread-pool contention, and this can’t be worked around with an
environment variable set at runtime since the thread pool is already
initialized by the time any R code runsdtm_stats test by adding missing
assertionsdfm cbind warning: early-return now only for pure
dgCMatrix, not subclasses like dfmpdf(NULL)rancor_builder()/rancors_builder() when
seed = NULL.Random.seed not found errors in a fresh R
session in perm_tester(), test_anchors()
(relco method), and plot.CoCA()doc_centrality(method = "span") incorrectly
requiring igraphperm_tester() crashing with
object 'x' not found when the model has exactly 2
coefficients (missing drop = FALSE in column subset)find_transformation(method = "align") crashing
with non-conformable arguments when
wv/ref have different row counts (now
validates upfront)dtm_builder() producing a DTM with the wrong
number of rows when the last document had zero tokens
(Matrix::sparseMatrix() inferred nrow from
max(i) instead of actual document count; now passes
explicit dims)relco print methods
(tbl_sum.relco, tbl_format_footer.relco) as S3
methods; previously silently unusedplot.CoCA() crashing with an unhelpful error on
invalid/out-of-range moduledtm_builder(vocab =, chunk =) creating a spurious
extra chunk row at exact chunk-size boundaries, and silently dropping
(instead of bucketing) out-of-vocabulary tokens.dtm_error_handler() no longer recognizing
current Matrix package error wordingdtm_stopper(stop_termprop =)’s error messageCMDist() crashing on single-document DTMsget_direction(method = "PCA") giving an unrelated
error when n_dirs exceeds available anchor pairsget_direction()’s \examples calling
method = "PCA" with only one anchor pair, which failed
R CMD check after the two-pair minimum above was added.ontomics (a local tool directory, not part of
the package) to .Rbuildignore; was triggering an R CMD
check NOTEfind_transformation(method = "retrofit") giving
an opaque error when wv/ref share no
vocabularyperm_tester() giving an opaque error for an
invalid statistic argumentget_centroid()/get_direction()
silently corrupting results when missing = "remove" dropped
an out-of-vocabulary term: an in-place anchors[] <-
assignment recycled the shortened result back to the original length
instead of shrinking, duplicating an earlier term in
get_centroid() (double-weighting it) and crashing or
corrupting get_direction() when the row count changed
unevenlyfind_transformation()’s documentation
(“simplying” → “simply”; “et a.” → “et al.”)_R_CHECK_LIMIT_CORES_, as R CMD check
sets): the test requested more threads than its reduction logic could
ever let survive the final row-count checkCoCA() silently computing nonsense
(NaNs produced) instead of disabling
filter_sig when given exactly 2 directions: the guard
compared ncol() of the CMD score data frame (which includes
a doc_id column) directly against 3, off by one relative to
the actual direction countCoCA() crashing with an opaque
dim(X) must have a positive length error when given exactly
1 direction; it now errors upfront with a clear message, since document
correlations are undefined with fewer than 2 directionsCMDist(cw =, missing = "remove") crashing with an
opaque invalid character indexing error when a multi-word
cw phrase (e.g. "critical thinking") had only
some of its words missing from the embeddings:
.check_term_in_embeddings() compared whole phrases against
the list of missing individual words, so a partially-missing phrase was
never actually dropped from cw despite the removal message
saying otherwise; it now drops the whole phrase if any of its words is
missingCMDist(cv = <0-row matrix>) crashing with
an opaque 'names' must be a character vector error; it now
errors upfront with a clear messageweight_ppmi(smooth > 0) triggering a
Matrix package deprecation warning
(as(<dgeMatrix>, "dgCMatrix") is deprecated); now
coerces via "CsparseMatrix", matching the pattern used
elsewhere in the packageCMDist(parallel = TRUE, sens_interval = TRUE)
crashing with task 1 failed - "invalid first argument"
whenever threads made a worker’s chunk exactly 1 document:
a missing drop = FALSE collapsed that 1-row chunk to a bare
vector before resamplingget_centroids(groups =) erroring with an opaque
missing value where TRUE/FALSE needed whenever
groups contained NA; rows with a missing group
label are now excluded from every centroid, with a message, matching how
empty factor levels are already handledfind_projection()/find_rejection()
silently returning a matrix of NaN for an all-zero
vec; both now error with a clear messagetest_anchors(method = "pairdir") crashing with an
opaque
attempt to set 'rownames' on an object with no dimensions
error with exactly 1 anchor pair; it now errors upfront with a clear
message, since pairwise cosine similarity is undefined with fewer than 2
pairsfind_transformation(method = "retrofit") crashing
with an opaque inherits(wv, "matrix") ... is not TRUE error
when the shared vocabulary between wv and ref
was smaller than wv’s embedding dimension; it now errors
upfront with a clear message, since retrofitting needs at least as many
shared terms as dimensions to recoverget_direction(method = "PCA") silently returning
a meaningless unit vector with only 1 anchor pair (a single centered row
degenerates in prcomp()); it now errors upfront with a
clear message, since PCA needs at least 2 anchor pairsget_regions(k_regions > nrow(wv)) crashing
with an opaque invalid 'data' error, several steps removed
from the real cause (ClusterR::KMeans_arma doesn’t raise an
R condition on this input — it prints a message and returns a character
string in place of a matrix); it now errors upfront with a clear
messagedtm_stopper(stop_termrank =) now warns when the
threshold is at or above the DTM’s term count, since this silently
removed the entire vocabulary with no indicationdtm_builder() now errors with a clear message when
text or doc_id contains NA
(previously the NA silently became a real column/row name),
and when vocab is empty or contains duplicate terms
(previously produced literal duplicate DTM columns, with later
duplicates silently all-zero, or a silent 0-column DTM)doc_centrality(two_mode = FALSE) now errors with a
clear message on a non-square input instead of silently computing
meaningless row sums across mismatched columns (only affected
method = "degree";
"between"/"eigen"/"span" already
failed loudly via their underlying dependency)relco method to test_anchorstest_anchortest_anchortest_anchortest_anchortest_anchortest_anchorAdded test_anchor Added more unit tests Fixed a bug in
doc_centrality using the centroid method
Fixes for changes to the Matrix package Updating documentation and added examples
Fix encoding issue for non-ASCII characters to work with
fastmatch Add functionality - perm_tester for
Monte Carlo Permutation Tests for Model P-Values -
rancor_builder creates random corpus based on provided term
probabilities - rancors_builder creates multiple random
corpora
Include additional tests, updated documentation and vignettes
Working on an encoding error in fastmatch which shows
inconsistent behavior with non-ASCII characters. This dev version
provides a temporary fix.
doc_centrality calculates four graph-based centrality
metrics using DTMsdoc_similarity calculates four document similarity
measures using DTMsget_regions, instead of mlpackseq_builder creates a token-integer sequence
representationdtm_builder includes an option to return a dense base R
matrixdtm_stopper includes an option to remove based on a
terms rank (e.g., top 10), stopping based on count and proportion are
now two separate optionsfind_transformation() to norm, center, and align
matricesfind_projection() finds the projection matrix onto a
vectorfind_rejection() finds the rejection matrix away from a
vectordtm_melter() quickly turns a DTM into a triplet
dataframe (doc_id, term, count)get_centroid() naming (limits to single word for
names)dtm_stopper() to stop words by
document or term frequencies
stop_freq was changed to
stop_termfreqdtm_resampler() to resample
proportion and fixed N lengthsNEWS.md file to track changes to the
package.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.