Bioconductor/GenomeInfoDb

Issues

• seqlevelsStyle time out

  #35 opened 3 years ago by haozhaozhe
  11

• error: seqlevelsStyle(annotations) <- 'UCSC'

  #109 opened 9 months ago by Kateahn
  10

• error in seqlevelsStyle()

  #110 opened 7 months ago by yloskove
  3

• renaming Seqlevels of a forged BSgenome to match an annotation file

  #108 opened 9 months ago by hannahvanm
  2

• Error in seqlevelsStyle(annotations) <- "UCSC"

  #107 opened 9 months ago by Syayaq
  1

• Error on setting `seqlevelsStyle(gal) <- "RefSeq"`

  #105 opened 10 months ago by rcastelo
  4

• Registering ARS-UI_Ramb_v2.0 Genome

  #100 opened 10 months ago by edicliuyang
  6

• download and parsing error in function call getChromInfoFromUCSC(genome = "hg19")

  #104 opened 10 months ago by maximilian-leitheiser
  1

• Unable to fetch seq info. Server down?

  #103 opened 10 months ago by daanhazelaar
  1

• Error in chromInfo file download when running seqlevelsStyle()

  #102 opened 10 months ago by Enterprise-D
  3

• Please help adding Xenopus tropicalis to GenomeInfoDb package

  #101 opened a year ago by clarkzor
  1

• BUG: list_ftp_dir() chokes when going via proxy server because it drops the URI protocol

  #99 opened a year ago by HenrikBengtsson
  13

• `getChromInfoFromEnsembl` is erroring for some previous Mus musculus releases

  #98 opened a year ago by mjsteinbaugh
  3

• `getChromInfoFromEnsembl` is erroring for GRCh37 genome build

  #97 opened a year ago by mjsteinbaugh
  4

• GenomeInfoDb - Registering the Sea Lamprey Genome

  #96 opened a year ago by hannahvanm
  3

• GenomeInfoDb::Seqinfo() may attach packages to the users' session

  #95 opened a year ago by mtmorgan
  1

• seqlevelsStyle -- supporting offline use?

  #94 opened a year ago by vjcitn
  1

• Packaging issue with conda/bioconda

  #93 opened a year ago by gdevenyi
  6

• Register NCBI assembly bStrHab1.2.pri

  #80 opened a year ago by kakopo
  1

• Trying to install GenomeInfoDB, GenomeInfoDBData, and Matrix all lead to non-zero exit status

  #92 opened 2 years ago by genferreri
  6

• Proposed contribution task for Outreachy applicants: Enable "offline mode" for gorGor6

  #63 opened 2 years ago by hpages
  2

• Proposed contribution task for Outreachy applicants: Link gorGor6 (UCSC genome) to Kamilah_GGO_v0 (NCBI assembly)

  #62 opened 2 years ago by hpages
  1

• Proposed contribution task for Outreachy applicants: Register NCBI assembly Kamilah_GGO_v0

  #61 opened 2 years ago by hpages
  1

• Proposed contribution task for Outreachy applicants: Register UCSC genome gorGor6

  #60 opened 2 years ago by hpages
  3

• Installation non-zero exit status issue

  #85 opened 2 years ago by jackbrougher
  2

• Error of seqlevelsStyle showing !anyNA(m32) is not TRUE

  #86 opened 2 years ago by Yijia-Jiang
  1

• getChromInfoFromUCSC: anyNA(m32) is not TRUE error for hg38

  #82 opened 2 years ago by chrarnold
  20

• I am having trouble retrieving annotation from hg38 using the GenomeInfoDb package.

  #84 opened 2 years ago by gnwwanne
  3

• New genbank accession prefix `MU`

  #81 opened 2 years ago by wresch
  1

• `Seqinfo` is now broken with UCSC hg38 (v1.34.7)

  #83 opened 2 years ago by mjsteinbaugh
  1

• Mapping Ensembl seqlevels to UCSC for Mmul_10/rheMac10

  #79 opened 2 years ago by hpages
  2

• Registration request for Catharus ustulatus NCBI assembly

  #78 opened 2 years ago by sopeadeniji
  10

• Add 'organism' argument to registered_UCSC_genomes()

  #72 opened 2 years ago by hpages
  10

• Proposed contribution task for Outreachy applicants: Enable "offline mode" for xenTro10

  #56 opened 2 years ago by hpages
  11

• Getting error in installing GenomeInfoDb

  #33 opened 2 years ago by beginner984
  4

• Proposed contribution task for Outreachy applicants: Link xenTro10 (UCSC genome) to UCB_Xtro_10.0 (NCBI assembly)

  #48 opened 2 years ago by hpages
  8

• Proposed contribution task for Outreachy applicants: Register UCSC genome xenTro10

  #46 opened 2 years ago by hpages
  16

• Proposed contribution task for Outreachy applicants: Register NCBI assembly UCB_Xtro_10.0

  #47 opened 2 years ago by hpages
  41

• Proposed contribution task for Outreachy applicants: Enable "offline mode" for felCat9

  #57 opened 2 years ago by hpages
  6

• Proposed contribution task for Outreachy applicants: Link felCat9 (UCSC genome) to Felis_catus_9.0 (NCBI assembly)

  #51 opened 2 years ago by hpages
  7

• Proposed contribution task for Outreachy applicants: Link canFam6 (UCSC genome) to Dog10K_Boxer_Tasha (NCBI assembly)

  #45 opened 2 years ago by hpages
  9

• Proposed contribution task for Outreachy applicants: Register NCBI assembly Felis_catus_9.0

  #50 opened 2 years ago by hpages
  14

• Proposed contribution task for Outreachy applicants: Register UCSC genome felCat9

  #49 opened 2 years ago by hpages
  19

• Proposed contribution task for Outreachy applicants: Enable "offline mode" for canFam6

  #55 opened 2 years ago by hpages
  6

• Proposed contribution task for Outreachy applicants: Register NCBI assembly Dog10K_Boxer_Tasha

  #44 opened 2 years ago by hpages
  20

• Proposed contribution task for Outreachy applicants: Register UCSC genome canFam6

  #43 opened 2 years ago by hpages
  17

• Error: package or namespace load failed for ‘GenomeInfoDb’; there is no package called ‘GenomeInfoDbData’

  #42 opened 2 years ago by chancharikmitra
  5

• 'new2old' not supported in 'seqinfo<-,DNAStringSet-method'

  #34 opened 3 years ago by susheelbhanu
  5

• GRCh38.p14 covers T2T-CHM13 information, correct?

  #37 opened 3 years ago by Shicheng-Guo
  2

• Registration request for Acyrthosiphon pisum NCBI assembly

  #36 opened 3 years ago by Scottyzy
  3