Issues created

• nextflow-io/nextflow: 20
• rstudio/shinytest2: 10
• langchain-ai/langchain: 9
• mritchielab/FLAMES: 9
• SegataLab/panphlan: 7
• chklovski/CheckM2: 7
• mschubert/clustermq: 7
• broadinstitute/strainge: 7
• phac-nml/mob-suite: 6
• shenwei356/taxonkit: 6
• single-cell-data/TileDB-SOMA: 5
• satijalab/seurat: 5
• smirarab/sepp: 5
• Illumina/interop: 5
• fbreitwieser/krakenuniq: 5
• snakemake/snakemake: 5
• biobakery/humann: 5
• mlr-org/batchtools: 4
• ncbi/sra-tools: 4
• pygridtools/gridmap: 4
• datastorm-open/visNetwork: 4
• MIDASverse/rMIDAS: 4
• dreamRs/toastui: 4
• jlowin/fastmcp: 4
• saketkc/pysradb: 4
• YuLab-SMU/ggtree: 4
• biobakery/MetaPhlAn: 4
• meringlab/FlashWeave.jl: 3
• kvas-it/pytest-console-scripts: 3
• glin/reactable: 3
• Appsilon/data.validator: 3
• nextflow-io/patterns: 3
• microsoft/vscode-jupyter: 3
• thomasp85/tidygraph: 3
• ericgoolsby/Rphylopars: 3
• eddelbuettel/littler: 3
• flatironinstitute/CaImAn: 3
• langchain-ai/langsmith-sdk: 3
• Merck/deepbgc: 3
• conda-forge/r-rfpermute-feedstock: 3
• vanheeringen-lab/genomepy: 3
• Ecogenomics/GTDBTk: 3
• allind/EukDetect: 3
• MultiQC/MultiQC: 3
• futureverse/future.batchtools: 3
• krisrs1128/structSSI: 2
• immunogenomics/scpost: 2
• vegandevs/vegan: 2
• cmmr/rbiom: 2
• conda-forge/r-bootstrap-feedstock: 2
• Anaconda-Platform/nb_conda_kernels: 2
• jrowen/rhandsontable: 2
• AdeelK93/collapsibleTree: 2
• epi2me-labs/wf-single-cell: 2
• run-llama/llama_index: 2
• MrOlm/inStrain: 2
• randy3k/shiny-cloudrun-demo: 2
• emepyc/Blast2lca: 2
• kearnz/autoimpute: 2
• bcgsc/nanosim: 2
• jeetsukumaran/dendropy: 2
• quarto-dev/quarto-r: 2
• anaconda/nb_conda: 2
• smithlabcode/falco: 2
• liaoherui/StrainScan: 2
• mamba-org/devcontainer-features: 2
• langchain-ai/langgraph: 2
• DataBiosphere/dsub: 2
• bgruening/conda_r_skeleton_helper: 2
• scverse/scanpy: 2
• rvalieris/parallel-fastq-dump: 2
• Asana/python-asana: 2
• nextflow-io/vscode-language-nextflow: 2
• gluc/data.tree: 2
• has2k1/plotnine: 2
• shakedna1/wspc_rep: 2
• nanoporetech/ont_fast5_api: 2
• MrOlm/drep: 2
• jdidion/atropos: 2
• hmiladhia/nbmanips: 2
• songweizhi/MetaCHIP: 2
• tidyverse/googlesheets4: 2
• quanshousio/ToastUI: 2
• openvax/pyensembl: 2
• burnash/gspread: 2
• mamba-org/mamba: 2
• mwaskom/seaborn: 2
• edmundmiller/nextflow-mode: 1
• shenwei356/seqkit: 1
• weaviate/weaviate: 1
• googleapis/google-api-python-client: 1
• RcppCore/Rcpp: 1
• pkolaczk/fclones: 1
• haiwen/seafile: 1
• cloudyr/aws.s3: 1
• nf-core/nanoseq: 1
• pbiecek/archivist: 1
• ropensci/taxize: 1
• briatte/ggnetwork: 1
• fpusan/SuperPang: 1
• apptainer/apptainer: 1
• wrathematics/openblasctl: 1
• mlr-org/parallelMap: 1
• thomasp85/ggraph: 1
• talgalili/heatmaply: 1
• tidymodels/rsample: 1
• derijkp/genomecomb: 1
• r-lib/httr2: 1
• Bioconductor/basilisk: 1
• BioContainers/containers: 1
• conda-forge/polars-feedstock: 1
• martin-steinegger/plass-analysis: 1
• hyattpd/Prodigal: 1
• conda-forge/r-tensora-feedstock: 1
• conda-forge/readline-feedstock: 1
• EricArcher/rfPermute: 1
• kyleam/snakemake-mode: 1
• bnaras/cubature: 1
• kussell-lab/mcorr: 1
• rstudio/shiny: 1
• ebi-pf-team/interproscan: 1
• Bioconductor/BiocManager: 1
• bcgsc/ntjoin: 1
• Martinsos/edlib: 1
• conda-forge/r-picante-feedstock: 1
• rstudio/chromote: 1
• BioinfoHR/coRdon: 1
• bcbi/genbank_holobiome: 1
• UBod/msa: 1
• wdecoster/nanolyse: 1
• GoekeLab/bambu: 1
• nanoporetech/dorado: 1
• rstudio/shiny-server: 1
• adibvafa/codontransformer: 1
• scverse/pertpy: 1
• rstudio/bslib: 1
• pachterlab/gget: 1
• plotly/plotly.R: 1
• GoogleCloudPlatform/gsutil: 1
• rstudio/packrat: 1
• rtyley/bfg-repo-cleaner: 1
• tseemann/barrnap: 1
• oschwengers/referenceseeker: 1
• mamba-org/micromamba-docker: 1
• conda-forge/aws-sam-cli-feedstock: 1
• bsmith89/StrainFacts: 1
• conda-forge/scikit-misc-feedstock: 1
• widdowquinn/find_differential_primers: 1
• lynnlangit/gcp-for-bioinformatics: 1
• conda-forge/r-dplyr-feedstock: 1
• micom-dev/micom: 1
• seqeralabs/tower-cli: 1
• jupyterlab/jupyterlab: 1
• devcontainers/images: 1
• jupyterlab/jupyterlab-desktop: 1
• IRkernel/IRdisplay: 1
• czbiohub/MIDAS2: 1
• rstudio/tensorflow: 1
• apptainer/apptainer-userdocs: 1
• gamcil/clinker: 1
• textbook/git-checkout-submodule-action: 1
• GoogleCloudPlatform/terraformer: 1
• wdecoster/nanoQC: 1
• conda/conda: 1
• pysam-developers/pysam: 1
• satijalab/seurat-data: 1
• snap-stanford/biomni: 1
• biobakery/phylophlan: 1
• biobakery/sparsedossa: 1
• apptainer/singularity: 1
• mdshw5/pyfaidx: 1
• ropensci/taxa: 1
• bootandy/dust: 1
• bionumpy/bionumpy: 1
• cdanielmachado/carveme: 1
• biocore/scikit-bio: 1
• r-lib/gargle: 1
• rocker-org/rocker: 1
• ibis-project/ibis: 1
• bebatut/enasearch: 1
• kblin/ncbi-genome-download: 1
• Huber-group-EMBL/biomaRt: 1
• conda-forge/lapack-feedstock: 1
• r-dbi/RPostgres: 1
• daattali/shinycssloaders: 1
• GoogleCloudPlatform/gcsfuse: 1
• jupyterlab/jupyter-ai: 1
• neherlab/pan-genome-analysis: 1
• rstudio/config: 1
• conda-forge/r-narray-feedstock: 1
• jeroen/sys: 1
• ctskennerton/crass: 1
• rstudio/httpuv: 1
• slackapi/python-slack-sdk: 1
• burgerga/shinyTime: 1
• microsoft/vscode-remote-release: 1
• tseemann/abricate: 1
• conda/conda-libmamba-solver: 1
• adw96/breakaway: 1
• umarbutler/semchunk: 1
• davidgohel/officer: 1
• mamba-org/gator: 1
• rstudio/rsconnect-jupyter: 1
• lmdu/pyfastx: 1
• 1password/op-vscode: 1
• reflex-dev/reflex: 1
• daattali/shinyalert: 1
• ShopRunner/jupyter-notify: 1
• MouseLand/cellpose: 1
• rstudio/pins-r: 1
• nebari-dev/jupyterlab-launchpad: 1
• Japal/zCompositions: 1
• agentops-ai/tokencost: 1
• r-lib/httr: 1
• ramnathv/htmlwidgets: 1
• rstudio/gridlayout: 1
• karel-brinda/NanoSim-H: 1
• conda-forge/dsub-feedstock: 1
• tudo-r/BatchJobs: 1
• andrie/gcalendr: 1
• rstudio/DT: 1
• mkborregaard/nodiv: 1
• MIDASverse/MIDASpy: 1
• biocore/unifrac: 1
• danielpodlesny/samestr: 1
• Teichlab/celltypist: 1
• markfairbanks/tidytable: 1
• mwakaba2/jupyterlab-notifications: 1
• HenrikBengtsson/future.apply: 1
• wch/chatstream: 1
• soedinglab/hh-suite: 1
• dentearl/maftools: 1
• srt32/git-actions: 1
• crewaiinc/crewai: 1
• biopython/biopython: 1
• posit-dev/shiny-vscode: 1
• jupyterlab-contrib/jlab-enhanced-launcher: 1
• conda-forge/r-mlr-feedstock: 1
• tyjo/coptr: 1
• streamlit/docs: 1
• ncbi/amr: 1
• mschubert/narray: 1
• pola-rs/polars: 1
• google-github-actions/deploy-cloudrun: 1
• tseemann/snp-dists: 1
• openai/openai-python: 1
• conda-forge/r-rlang-feedstock: 1
• asweigart/pyperclip: 1
• jupyter/notebook: 1
• ipython-contrib/jupyter_contrib_nbextensions: 1
• alexdobin/STAR: 1
• AnotherSamWilson/ParBayesianOptimization: 1
• conda/conda-build: 1

Pull requests created

• conda-forge/r-ade4-feedstock: 3
• widdowquinn/find_differential_primers: 2
• conda-forge/r-bootstrap-feedstock: 2
• liaoherui/StrainScan: 2
• bsmith89/StrainFacts: 1
• biobakery/humann: 1
• songweizhi/MetaCHIP: 1
• conda-forge/r-cooccur-feedstock: 1
• conda-forge/r-cubature-feedstock: 1
• conda-forge/r-data.table-feedstock: 1
• leylabmpi/resmico: 1
• openvax/gtfparse: 1
• MrOlm/inStrain: 1
• conda-forge/r-rzmq-feedstock: 1
• conda-forge/r-gridgraphics-feedstock: 1
• pygridtools/gridmap: 1
• conda-forge/lasagne-feedstock: 1
• openvax/pyensembl: 1
• biobakery/phylophlan: 1
• broadinstitute/strainge: 1
• rvalieris/parallel-fastq-dump: 1
• bgruening/conda_r_skeleton_helper: 1
• nextflow-io/nextflow: 1
• conda-forge/r-tensora-feedstock: 1
• conda-forge/r-mlr-feedstock: 1
• jrowen/rhandsontable: 1
• burgerga/shinyTime: 1

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