NEWS.md

In zellkonverter: Conversion Between scRNA-seq Objects

zellkonverter 1.0

• Bioconductor 3.12, October 2020

zellkonverter 1.0.3 (2021-03-08)

• Avoid converting obsp and varp to dense matrices

zellkonverter 1.0.2 (2021-01-28)

• Merge remaining commits for HDF5 conversion (fixes #33)

zellkonverter 1.0.1 (2021-01-26)

• Improved support for HDF5 backed conversion (PR #29, fixes #13, fixes #33)

zellkonverter 0.99.7 (2020-10-16)

• Update Python dependencies
• numpy 1.18.5 -> 1.19.1
• pandas 1.0.4 -> 1.1.2
• scipy 1.4.1 -> 1.5.2
• sqlite 3.30.1 -> 3.33.0

zellkonverter 0.99.6 (2020-10-12)

• Document character to factor coercion in writeH5ad() (Fixes #6)
• Add X_name argument to writeH5AD() (Fixes #23)

zellkonverter 0.99.5 (2020-09-28)

• Tidy NEWS files for Bioconductor release

zellkonverter 0.99.4 (2020-08-28)

• Bump anndata version to 0.7.4

zellkonverter 0.99.3 (2020-08-21)

• Document the krumsiek11.h5ad file
• Remove the internal keyword from the zellkonverter-package documentation

zellkonverter 0.99.2 (2020-08-21)

• Update .gitignore

zellkonverter 0.99.1 (2020-07-15)

• Fix SCE to AnnData map figure in PDF manual
• Use expect_equal() instead of expect_identical() in writeH5AD() sparse matrices test
• Edit package title and description

zellkonverter 0.99.0 (2020-07-10)

• Initial Bioconductor submission

zellkonverter 0.0.0 (early development version)

zellkonverter 0.0.0.9017 (2020-07-10)

• Add biocViews to DESCRIPTION
• Edit package description
• Tidy code
• Replace 1:... with seq_len()

zellkonverter 0.0.0.9016 (2020-07-10)

• Add check for scRNAseq in examples (Fixes #18)

zellkonverter 0.0.0.9015 (2020-07-02)

• Skip AnnData matrices without a transposable R counterpart
• Only replace skipped matrices when use_hdf5 = TRUE in readH5AD() (Fixes #12)
• Additional tests for sparse matrices

zellkonverter 0.0.0.9014 (2020-06-30)

• Allow assay skipping when converting from SingleCellExperiment to AnnData
• Allow skipping of assays that aren't numpy friendly in writeH5AD()
• Wait for basilisk process shutdown to release .h5ad file
• Updates to documentation and tests

zellkonverter 0.0.0.9013 (2020-06-25)

• Improve conversion between SingleCellExperiment and AnnData (See #8)
• Convert between metadata and uns (where objects are compatible)
• Convert between rowPairs and varp
• Convert between colPairs and obsp
• Convert from varm to rowData (but not in reverse)
• Add mapping table to docs

zellkonverter 0.0.0.9012 (2020-06-19)

• Tidy documentation and code
• Tidy vignette

zellkonverter 0.0.0.9011 (2020-06-18)

• Support for HDF5Array outputs in readH5AD() (Fixes #4)

zellkonverter 0.0.0.9010 (2020-06-17)

• Avoid checking column names for colData and rowData in SCE2AnnData()
• Make sure that all matrices passes to {reticulate} are numpy friendly
• Add more tests
• Update vignette front matter

zellkonverter 0.0.0.9009 (2020-06-15)

• Add vignette

zellkonverter 0.0.0.9008 (2020-06-12)

• Add examples and improve documentation
• Export .AnnDataDependencies for external use

zellkonverter 0.0.0.9007 (2020-06-11)

• Add SCE2AnnData() function
• Add writeH5AD() function

zellkonverter 0.0.0.9006 (2020-06-11)

• Use internal function in readH5AD()

zellkonverter 0.0.0.9005 (2020-06-09)

• Rename adata2SCE() to AnnData2SCE()
• Remove {basilisk} context from AnnData2SCE() (See #1)
• Now uses the calling context

zellkonverter 0.0.0.9004 (2020-06-09)

• Pin more AnnData dependencies (See #1)

zellkonverter 0.0.0.9003 (2020-06-08)

• Add test .h5ad file
• Add test for readH5AD()
• Add package man page

zellkonverter 0.0.0.9002 (2020-06-08)

• Add adata2SCE() function
• Add readH5AD() function

zellkonverter 0.0.0.9001 (2020-06-08)

• Add {basilisk} infrastructure

zellkonverter 0.0.0.9000 (2020-06-08)

• Set up package

zellkonverter documentation built on March 10, 2021, 2 a.m.