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  • add-logging
  • add-phenotype-to-consensus-tree
  • add-progress-bars
  • add-scoring-matrices-to-resources
  • add_RG_option
  • add_gfa_build_pangenome
  • add_gfa_export
  • add_loading_bars
  • add_panva_queries
  • add_promoter_sequence_analysis
  • adjust_runners_to_k8s
  • automatic_skip_core_phylogeny_fix
  • develop protected
  • docker
  • eggnog_fix
  • fasta-validation
  • feature/fix-msa-with-threshold
  • feature/kmer_coords
  • feature/map_kmers_to_coords
  • feature/update-msa-with-aa-presence-threshold
  • v4.3.4
  • v4.3.3
  • v4.3.2
  • v4.3.1
  • v4.3.0
  • v4.2.3
  • v4.2.2
  • v4.2.1
  • v4.2.0
  • v4.1.1
  • v4.1.0
  • v4.0.0
  • v3.4.0
  • v3.2.0
  • v3.1.0
  • v3.0.0
  • v2.0.0
  • v1.3.0
38 results
Created with Raphaël 2.2.03Jul216Jun543216May15141230Apr292825242322181716151411109831Mar282725241413121110328Feb212019181710754321Jan1716159876320Dec1918171613963218Nov14124129Oct28252321161511109827Sep2625241310916Aug1513129876526Jul2518171611227Jun26252421201918171211730May292315129632130Apr29262423191817161598525Mar22201918151411654123Feb22fix some minor issues that showed up when starting end-to-end testingremoved deprecated use of getId for GO nodesforgot to remove commitputting creation of mrna node map in same transaction to prevent neo4j complainingfix transaction usagemake sure genome node exists within transaction for adding variantsMerge branch 'develop' into update_dependencies_pantoolsremove all uses of deprecated node IDs for function nodes except for some GO that are still todoMerge branch 'fix_tigrfam_entry_consistency' into 'develop'initialize variables for adding tigrfam where they are declaredMerge branch 'develop' into fix_tigrfam_entry_consistencyupdate changelogmake sure that 'ID' field and 'AC' field end up in the same neo4j nodedon't add the irrelevant unique 'id' to a relationship dumpupdate test to ignore the 'id' property on nodes and relationshipsadding 'id' properties of relationships to index as wellfix locations where localisation information is useduse unique identifiers for nucleotide layer nodesfix speed issue by indexing 'id' property on nucleotide nodesMerge branch 'fix_busco_scores_file' into 'develop'update changelogfix the numbers for fragmented and missing in busco_scores.txtRevert "using unique IDs for both nucleotide nodes and relationships to make all nodes in the cDBG unique"using unique IDs for both nucleotide nodes and relationships to make all nodes in the cDBG uniqueMerge branch 'develop' into update_dependencies_pantoolsMerge branch 'generalise_end_to_end_pipeline' into 'develop'fix developer documentation for end-to-end pipelineupdate documentation for end-to-end pipelineupdate changelogtry to initialise both mamba and conda to fix the problemforgot to replace local by reference when copying over the rulesfix calling mamba by setting channel priority to strict and trying to fix mamba root prefixtry replacing micromamba by mamba since snakemake cannot handle with micromamba apibe more specific that we're using micromamba instead of normal mamba'try using snakemake with conda by specifyingforgot to add channels for installing snakemake in ci/cd pipelinemake the end-to-end pipeline more generalFixed merge conflictsfeature/fix-msa…feature/fix-msa-with-thresholdMerge branch 'develop' into update_dependencies_pantoolsMerge branch 'ensure_busco_exists_before_optimal_grouping' into 'develop'