Ecosyste.ms: Issues

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

GitHub / Bioconductor/BSgenome issues and pull requests

#79 - Support for BSgenomeViews objects in matchPWM

Issue - State: open - Opened by jma1991 over 6 years ago - 3 comments

#78 - About 'a registered NCBI assembly or UCSC genome'

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

#76 - seqlengths issue again

Issue - State: closed - Opened by stevenjblair 8 months ago - 1 comment

#75 - Please help adding Xenopus tropicalis to GenomeInfoDb package

Issue - State: closed - Opened by clarkzor 10 months ago - 2 comments

#74 - Can't find genome in NCBI and UCSC

Issue - State: closed - Opened by jang1563 10 months ago - 7 comments

#73 - Issue with forgeBSgenomeDataPkg()

Issue - State: closed - Opened by yangshichen0713 about 1 year ago - 11 comments

#72 - Add rworkflows

Pull Request - State: closed - Opened by bschilder about 1 year ago

#71 - Support for canFam4

Pull Request - State: open - Opened by isilta over 1 year ago - 1 comment

#70 - forgeBSgenomeDataPkg erro in Getting chrom info

Issue - State: closed - Opened by ld9866 over 1 year ago - 4 comments

#69 - Issue with forgeBSgenomeDataPkg()

Issue - State: closed - Opened by criveralopez over 1 year ago - 8 comments

#68 - Error Forging BSGenome

Issue - State: closed - Opened by woodjosh7 over 1 year ago - 2 comments

#67 - Overriding getSeqlengths

Issue - State: closed - Opened by stevenjblair almost 2 years ago - 11 comments

#66 - Error reported when creating Masked BSgenome

Issue - State: closed - Opened by Song-10-YF almost 2 years ago - 6 comments

#65 - snpsBySeqname and snpsByOverlaps does not work.

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

#64 - BSgenome packge for proprietary genome

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

#63 - Forge BSgenome data package for NCBI assembly bStrHab1.2.pri

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

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

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

#61 - Conflict with rtracklayer

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

#60 - `BSgenome` to failing on Bioc release and devel

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

#59 - Use unpublished in-house genome fasta for creating a BSgenome object

Issue - State: closed - Opened by alslonik almost 2 years ago - 4 comments

#58 - add new version of genome

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

#57 - snpsById call does not complete for dbSNP155

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

#56 - Error Forging BSgenome Package

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

#54 - Help

Issue - State: closed - Opened by zhanglp996 about 2 years ago - 4 comments

#53 - Add 'replace' argument to forgeBSgenomeDataPkg()

Pull Request - State: closed - Opened by Priceless-P about 2 years ago - 5 comments

#52 - Forge BSgenome data package for NCBI assembly UCB_Xtro_10.0

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

#51 - Forge BSgenome data package for UCSC genome xenTro10

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

#50 - Add 'replace' argument to forgeBSgenomeDataPkg()

Issue - State: closed - Opened by hpages about 2 years ago - 17 comments
Labels: enhancement

#49 - Add seed file and fasta_to_sorted_2bit

Pull Request - State: closed - Opened by Priceless-P about 2 years ago - 3 comments

#48 - Forge BSgenome data package for NCBI assembly Felis_catus_9.0

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

#47 - Forge BSgenome data package for UCSC genome felCat9

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

#46 - Forge BSgenome data package for UCSC genome canFam6

Pull Request - State: closed - Opened by Priceless-P about 2 years ago - 18 comments

#44 - Proposed task for Outreachy applicants: Forge BSgenome data package for UCSC genome gorGor6

Issue - State: open - Opened by hpages about 2 years ago
Labels: outreachy dec22

#43 - Proposed task for Outreachy applicants: Forge BSgenome data package for NCBI assembly Felis_catus_9.0

Issue - State: closed - Opened by hpages about 2 years ago - 10 comments
Labels: outreachy dec22

#42 - Proposed task for Outreachy applicants: Forge BSgenome data package for UCSC genome felCat9

Issue - State: closed - Opened by hpages about 2 years ago - 16 comments
Labels: outreachy dec22

#41 - Proposed task for Outreachy applicants: Forge BSgenome data package for NCBI assembly UCB_Xtro_10.0

Issue - State: closed - Opened by hpages about 2 years ago - 19 comments
Labels: outreachy dec22

#40 - Proposed task for Outreachy applicants: Forge BSgenome data package for UCSC genome xenTro10

Issue - State: closed - Opened by hpages about 2 years ago - 5 comments
Labels: outreachy dec22

#39 - Proposed task for Outreachy applicants: Forge BSgenome data package for NCBI assembly Dog10K_Boxer_Tasha

Issue - State: closed - Opened by hpages about 2 years ago - 15 comments
Labels: outreachy dec22

#38 - Proposed task for Outreachy applicants: Forge BSgenome data package for UCSC genome canFam6

Issue - State: closed - Opened by hpages about 2 years ago - 7 comments
Labels: outreachy dec22

#37 - getSeq versus Views runtime

Issue - State: open - Opened by jayoung about 2 years ago - 5 comments

#36 - BSgenome.Rnorvegicus.NCBI.rn6

Issue - State: closed - Opened by Dalhte about 2 years ago - 12 comments

#35 - error forgebsgenome

Issue - State: closed - Opened by balathumma10 about 2 years ago - 6 comments

#34 - no existing definition for function ‘releaseName’

Issue - State: closed - Opened by jeroen over 2 years ago - 14 comments

#33 - Malformed package name

Issue - State: closed - Opened by m-waqas over 2 years ago - 4 comments

#32 - Error occured when forge Axolotl genome by BSgenome

Issue - State: closed - Opened by xiangyupan over 2 years ago - 2 comments

#31 - Speeding up `BSgenome::snpsById`

Issue - State: closed - Opened by bschilder over 2 years ago - 4 comments

#30 - BSgenome package not available

Issue - State: closed - Opened by prmunn over 2 years ago - 2 comments

#29 - Unable to forge genome for EquCab

Issue - State: closed - Opened by prmunn over 2 years ago - 3 comments

#28 - Is there any way to circumvent the need for 2bit?

Issue - State: closed - Opened by stevenjblair over 2 years ago - 5 comments

#27 - Can I forge an unregistered NCBI? (Am I doing this right?)

Issue - State: closed - Opened by stevenjblair over 2 years ago

#26 - Gallus gallus bGalGal1.mat.broiler.GRCg7b

Issue - State: closed - Opened by AO-M-Lima almost 3 years ago - 7 comments

#25 - New BSgenome - C3H/HeJ Mus musculus

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

#24 - checking DESCRIPTION meta-information ... ERROR

Issue - State: closed - Opened by gevro about 3 years ago - 1 comment

#23 - Error: values for symbols PKGVERSION are not single strings

Issue - State: closed - Opened by gevro about 3 years ago - 5 comments

#22 - New CHM13 genome

Issue - State: closed - Opened by gevro about 3 years ago - 4 comments

#21 - [Question] Create new mask without BSgenomeForge?

Issue - State: closed - Opened by monovich about 3 years ago - 2 comments

#20 - forge custom BSgenome error: not a registered NCBI assembly or UCSC genome

Issue - State: closed - Opened by santataRU about 3 years ago - 15 comments

#19 - New BSgenome - Mycobacterium tuberculosis

Issue - State: closed - Opened by Ellauyz about 3 years ago - 9 comments

#18 - Errors creating BSgenome for rn7

Issue - State: closed - Opened by zrcjessica over 3 years ago - 6 comments

#17 - inconsistent getSeq and isCircular behavior

Issue - State: open - Opened by Roleren over 3 years ago - 2 comments

#16 - Forging BSgenome that is not registered

Issue - State: closed - Opened by alutservitz almost 4 years ago - 3 comments

#15 - What is the latest version?

Issue - State: closed - Opened by max1c almost 4 years ago - 2 comments

#14 - propagate both genome and seqinfo information from 'subject'

Pull Request - State: closed - Opened by LiNk-NY about 4 years ago - 2 comments

#13 - should matchPattern propagate subject genome?

Issue - State: closed - Opened by vjcitn about 4 years ago - 1 comment

#12 - Load a genome - Chlamydomonas reinhardtii v5 genome

Issue - State: closed - Opened by mullerbsf about 4 years ago - 15 comments

#11 - forge BSgenome data package from unpublished genome

Issue - State: closed - Opened by tamaraprieto over 4 years ago - 2 comments

#10 - create masked BSgenome with RM only

Issue - State: closed - Opened by BingbingYuan over 4 years ago - 7 comments

#9 - Issue with BSgenome installation

Issue - State: closed - Opened by joseverdezoto over 4 years ago - 3 comments

#8 - Added userMask+invertUserMask option also to the PWM and PDict matchi…

Pull Request - State: closed - Opened by fgeier almost 5 years ago - 1 comment

#7 - GRCh37

Issue - State: closed - Opened by hpoisner almost 5 years ago

#6 - Add New Genome!

Issue - State: closed - Opened by hyBio almost 5 years ago - 2 comments

#5 - Disagreement between sequences and names for `getSeq,XStringSet`

Issue - State: closed - Opened by csoneson about 5 years ago - 3 comments

#4 - Failed to install

Issue - State: closed - Opened by bigguscodus about 5 years ago - 5 comments

#3 - Feature request: user-level BSgenome() constructor

Issue - State: open - Opened by hpages over 5 years ago

#1 - Clarify documentation of 'exclude' slot in a BSParams

Issue - State: closed - Opened by PeteHaitch about 6 years ago - 1 comment