Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / Bioconductor/BSgenomeForge issues and pull requests

#44 - Create new custom genome for BSgenome

Issue - State: open - Opened by ckuanglim85 3 months ago

#43 - BSgenomeForge from Ensembl genome

Issue - State: closed - Opened by junjunxy 7 months ago - 4 comments

#42 - Improve error message in get_circ_seqs_for_unregistered_assembly_or_genome()

Issue - State: open - Opened by hpages 7 months ago
Labels: enhancement

#41 - Replace ambiguities from NCBI assembly

Issue - State: closed - Opened by JirkaMP 7 months ago - 5 comments

#40 - assembly_has_no_assembled_molecules

Issue - State: closed - Opened by ifanirene 7 months ago - 3 comments

#38 - forgeBSgenomeDataPkg: not a registered NCBI assembly or UCSC genome error

Issue - State: closed - Opened by sadikmz 8 months ago - 4 comments

#37 - Fix typo

Pull Request - State: closed - Opened by jeroen 10 months ago - 1 comment

#36 - Error in .subsetTwobitFile when using forgeBSgenomeDataPkg for a custom genome

Issue - State: closed - Opened by vmurigneu about 1 year ago - 1 comment

#33 - Package level manpage

Pull Request - State: closed - Opened by kakopo over 1 year ago - 7 comments

#32 - Minor edits to vignette and man pages

Pull Request - State: closed - Opened by kakopo over 1 year ago - 2 comments

#31 - Preparing BSgenomeForge for submission

Pull Request - State: closed - Opened by kakopo over 1 year ago

#30 - Add vignette for BSgenomeForge

Pull Request - State: closed - Opened by kakopo almost 2 years ago

#29 - Prepare the package for submission, and submit

Issue - State: closed - Opened by hpages almost 2 years ago - 10 comments

#28 - Do not download genomic sequences again if already downloaded

Pull Request - State: closed - Opened by kakopo almost 2 years ago

#27 - Minor edits to unit tests for BSgenomeForge:::.get_circ_seqs()

Pull Request - State: closed - Opened by kakopo almost 2 years ago

#26 - First unit test commit

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 1 comment

#25 - forgeBSgenomeDataPkgFromNCBI() enhancement: do not download genomic sequences again if already downloaded

Issue - State: closed - Opened by hpages almost 2 years ago - 5 comments
Labels: enhancement

#24 - Write package vignette

Issue - State: closed - Opened by hpages almost 2 years ago - 14 comments

#23 - Implement, export, and document forgeBSgenomeDataPkgFromUCSC()

Issue - State: closed - Opened by hpages almost 2 years ago - 1 comment

#22 - Refine handling of 'circ_seqs' argument.

Pull Request - State: closed - Opened by kakopo almost 2 years ago

#20 - Programmatically obtain the assembly name from NCBI

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 6 comments

#18 - Try to improve BSgenomeForge:::abbreviate_organism_name()

Issue - State: open - Opened by hpages almost 2 years ago - 3 comments
Labels: enhancement

#17 - Add unit tests for BSgenomeForge:::.get_circ_seqs()

Issue - State: closed - Opened by hpages almost 2 years ago - 8 comments
Labels: enhancement

#16 - forgeBSgenomeDataPkgFromNCBI() enhancement: Refine handling of 'circ_seqs' argument

Issue - State: closed - Opened by hpages almost 2 years ago - 9 comments
Labels: enhancement

#15 - Add 'circ_seqs' argument to forgeBSgenomeDataPkgFromNCBI()

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 16 comments

#14 - forgeBSgenomeDataPkgFromNCBI() enhancement: Programmatically obtain the assembly name from NCBI

Issue - State: closed - Opened by hpages almost 2 years ago - 3 comments
Labels: enhancement

#13 - Add 'circ_seqs' argument to forgeBSgenomeDataPkgFromNCBI()

Issue - State: closed - Opened by hpages almost 2 years ago - 8 comments
Labels: enhancement

#12 - Implement, export, and document forgeBSgenomeDataPkgFromNCBI()

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 17 comments

#11 - Implement, export, and document forgeBSgenomeDataPkgFromNCBI()

Issue - State: closed - Opened by hpages almost 2 years ago - 8 comments

#10 - Add "NCBI_BSgenome_datapkg" package template to BSgenomeForge

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 2 comments

#8 - Add 'assembly_accession' argument to fastaTo2bit()

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 10 comments

#7 - Add 'assembly_accession' argument to fastaTo2bit()

Issue - State: closed - Opened by hpages almost 2 years ago - 3 comments

#6 - Implement basic functionality for fastaTo2bit()

Pull Request - State: closed - Opened by kakopo almost 2 years ago - 9 comments

#4 - Implement, export, and document downloadGenomicSequencesFromUCSC()

Pull Request - State: closed - Opened by Simplecodez about 2 years ago - 11 comments

#3 - downloadGenomicSequencesFromNCBI

Pull Request - State: closed - Opened by Priceless-P about 2 years ago - 17 comments

#2 - Implement, export, and document downloadGenomicSequencesFromUCSC()

Issue - State: closed - Opened by hpages about 2 years ago - 29 comments
Labels: good first issue, outreachy dec2022

#1 - Implement, export, and document downloadGenomicSequencesFromNCBI()

Issue - State: closed - Opened by hpages about 2 years ago - 3 comments
Labels: outreachy dec2022