Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / LuyiTian/scPipe issues and pull requests
#100 - create_report() broken in devel
Issue -
State: closed - Opened by PeteHaitch over 6 years ago
- 2 comments
#99 - ERROR: compilation failed for package ‘scPipe’ in Centos7.3
Issue -
State: closed - Opened by wenchuanxie over 6 years ago
- 2 comments
#98 - Fixed sc_detect_bc returning one too many cell indices
Pull Request -
State: closed - Opened by Shians over 6 years ago
#97 - Support for Sample Demultiplexing
Issue -
State: closed - Opened by DarioS over 6 years ago
- 2 comments
#96 - Added ability to use GRanges and data.frame as annotation
Pull Request -
State: closed - Opened by Shians over 6 years ago
#95 - Disabled multiple BAM input for sc_exon_mapping
Pull Request -
State: closed - Opened by Shians over 6 years ago
- 5 comments
#94 - Error installing scPipe
Issue -
State: closed - Opened by davetang over 6 years ago
- 5 comments
#93 - Meaning of `UMI_cor = 2` in sc_gene_counting()
Issue -
State: open - Opened by PeteHaitch over 6 years ago
- 2 comments
#92 - Fix BC2_INFO__ in HTML report
Pull Request -
State: closed - Opened by PeteHaitch over 6 years ago
- 1 comment
#91 - GO filter ID and other BioMart issues during calculate_QC_metrics()
Issue -
State: open - Opened by okorn-src over 6 years ago
- 1 comment
#90 - Ensure colData isn't clobbered by pheno_data in create_sce_by_dir()
Pull Request -
State: closed - Opened by PeteHaitch over 6 years ago
#89 - create_sce_by_dir() will error if passed a pheno_data
Issue -
State: closed - Opened by PeteHaitch over 6 years ago
- 1 comment
#88 - Why do we need to respecify barcode information in sc_exon_mapping?
Issue -
State: open - Opened by LTLA over 6 years ago
- 4 comments
#87 - Support pre-loaded annotation data structures
Issue -
State: open - Opened by LTLA over 6 years ago
- 8 comments
#86 - Typo
Pull Request -
State: closed - Opened by PeteHaitch over 6 years ago
#85 - Document that output of sc_trim_barcode() can be automatically gzipped
Pull Request -
State: closed - Opened by PeteHaitch over 6 years ago
- 1 comment
#84 - sc_demultiplex - barcode_match 0
Issue -
State: closed - Opened by tkigih over 6 years ago
- 2 comments
#83 - Multiple fastq files (multiple samples)
Issue -
State: open - Opened by gk-bioin4m8x over 6 years ago
- 5 comments
#82 - Updated README to use BiocManager
Pull Request -
State: closed - Opened by Shians over 6 years ago
#81 - Updated get_read_str documentation
Pull Request -
State: closed - Opened by Shians over 6 years ago
#80 - Convenience Parameter Specification for Popular Assays
Issue -
State: open - Opened by DarioS over 6 years ago
- 2 comments
#79 - Tidied up vignette
Pull Request -
State: closed - Opened by Shians over 6 years ago
#78 - Vignette is Untidy
Issue -
State: open - Opened by DarioS over 6 years ago
#77 - Corrected "suffix" argument in sc_detect_bc
Pull Request -
State: closed - Opened by Shians over 6 years ago
#76 - Documentation update and optimisations
Pull Request -
State: closed - Opened by Shians over 6 years ago
- 2 comments
#75 - Possible logic error in Barcode::get_closest_match?
Issue -
State: closed - Opened by Shians over 6 years ago
- 1 comment
#74 - Added small parallelism to parse_align
Pull Request -
State: closed - Opened by Shians over 6 years ago
#73 - Fixed R CMD CHECK errors
Pull Request -
State: closed - Opened by Shians over 6 years ago
- 2 comments
#72 - Housekeeping changes
Pull Request -
State: closed - Opened by Shians over 6 years ago
#71 - ERCC counts missing
Issue -
State: closed - Opened by Shians almost 7 years ago
- 2 comments
#70 - Does distance to end of transcript make sense?
Issue -
State: closed - Opened by Shians almost 7 years ago
- 3 comments
#69 - Added tests, gzipped output and helper functions
Pull Request -
State: closed - Opened by Shians almost 7 years ago
#68 - accept pre-demultiplexed files
Issue -
State: closed - Opened by LuyiTian almost 7 years ago
- 1 comment
Labels: enhancement, urgent
#67 - update the cell barcode demultiplex method
Issue -
State: open - Opened by LuyiTian almost 7 years ago
Labels: enhancement
#66 - do not put all csv string in memory
Issue -
State: open - Opened by LuyiTian almost 7 years ago
- 4 comments
Labels: enhancement
#65 - Temporarily disabled reporting
Pull Request -
State: closed - Opened by Shians almost 7 years ago
#64 - Fixed GeneBins implementation
Pull Request -
State: closed - Opened by Shians almost 7 years ago
#63 - Rewrote gff parsing and gene counting
Pull Request -
State: closed - Opened by Shians almost 7 years ago
#62 - Rewrite gff3 parser and read counting
Pull Request -
State: closed - Opened by Shians almost 7 years ago
- 1 comment
#61 - We should rethink is_outlier
Issue -
State: open - Opened by Shians almost 7 years ago
#60 - segfault: Memory not mapped
Issue -
State: open - Opened by MingBit almost 7 years ago
- 3 comments
#59 - gencode GFF3 annotation sc_exon_mapping fault
Issue -
State: open - Opened by ssmax1 almost 7 years ago
- 14 comments
#58 - Fixed compilation bug on g++ 4.8.5
Pull Request -
State: closed - Opened by Shians almost 7 years ago
- 1 comment
#57 - Installation fails compiling C++ code "implicitly deleted because the default definition would be ill-formed"
Issue -
State: open - Opened by lachlansimpson almost 7 years ago
- 3 comments
#56 - Add org.Hs.eg.db and org.Mm.eg.db to import
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#55 - Release 3 6
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#54 - Release 3 6
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#53 - update release
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#52 - Fixed compiling error
Pull Request -
State: closed - Opened by Shians about 7 years ago
#51 - Added prototype gzipped trim barcode functionality
Pull Request -
State: closed - Opened by Shians about 7 years ago
#50 - Facilities for EntrezIDs
Issue -
State: open - Opened by Shians about 7 years ago
#49 - Added count_aligned_bam wrapper function
Pull Request -
State: closed - Opened by Shians about 7 years ago
#48 - Output gzipped fastq from trim barcode
Issue -
State: open - Opened by Shians about 7 years ago
- 1 comment
#47 - fix bug
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#46 - Release 3 6
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#45 - merge recent changes
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#44 - Need error tolerance for incorrect read structures
Issue -
State: open - Opened by Shians about 7 years ago
- 4 comments
#43 - Fixed bugs in slim report and trimbarcode error message
Pull Request -
State: closed - Opened by Shians about 7 years ago
#42 - Fix incomplete error message
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#41 - Documentation updates, new functions and bug fixes
Pull Request -
State: closed - Opened by Shians about 7 years ago
- 1 comment
#40 - Release 3 6
Pull Request -
State: closed - Opened by LuyiTian about 7 years ago
#39 - create_report fails if `outdir` is not the current directory
Issue -
State: open - Opened by Shians about 7 years ago
#38 - sc_exon_mapping bam tag arguments
Issue -
State: open - Opened by Shians about 7 years ago
#37 - Read structure handling
Issue -
State: open - Opened by Shians about 7 years ago
- 1 comment
#36 - Fixed handling of colData when assigning to QC_metrics
Pull Request -
State: closed - Opened by Shians about 7 years ago
#35 - No R wrappers for 10X data processing?
Issue -
State: closed - Opened by Shians about 7 years ago
- 1 comment
#34 - Assigning to QC_metrics overrides colData
Issue -
State: closed - Opened by Shians about 7 years ago
- 2 comments
#33 - readr used in report template but not listed as a dependency
Issue -
State: open - Opened by Shians over 7 years ago
- 1 comment
#32 - Defaults on create_report inside create_sce_by_dir not sensible
Issue -
State: closed - Opened by Shians over 7 years ago
- 2 comments
#31 - Fixed bug when no QC_cols specified
Pull Request -
State: closed - Opened by Shians over 7 years ago
#30 - Changed some checks and wording
Pull Request -
State: closed - Opened by Shians over 7 years ago
#29 - Future
Pull Request -
State: closed - Opened by LuyiTian over 7 years ago
#28 - scPipe loads a LOT of DLLs
Issue -
State: closed - Opened by Shians over 7 years ago
#27 - ERROR: dependency ‘Rhtslib’ is not available for package ‘scPipe’
Issue -
State: closed - Opened by steve-englart over 7 years ago
- 4 comments
#26 - sc_demultiplex crashes R
Issue -
State: closed - Opened by klprint over 7 years ago
- 7 comments
#25 - Use official barcode and UMI tags
Issue -
State: closed - Opened by Shians over 7 years ago
#24 - Fixed for Bioconductor
Pull Request -
State: closed - Opened by Shians over 7 years ago
#23 - Added import(Rhtslib) to NAMESPACE
Pull Request -
State: closed - Opened by Shians over 7 years ago
#22 - Added zlibbioc lines
Pull Request -
State: closed - Opened by Shians over 7 years ago
#21 - detect_outlier per batch
Issue -
State: closed - Opened by LuyiTian over 7 years ago
#20 - Updated report_template with new camelCase methods
Pull Request -
State: closed - Opened by Shians over 7 years ago
#19 - Updated documentation
Pull Request -
State: closed - Opened by Shians over 7 years ago
#18 - Changed code styling
Pull Request -
State: closed - Opened by Shians over 7 years ago
#17 - BiocCheck FAILED
Issue -
State: closed - Opened by LuyiTian over 7 years ago
- 1 comment
#16 - finish the vignettes and add example data
Issue -
State: closed - Opened by LuyiTian over 7 years ago
#15 - write convert function
Issue -
State: closed - Opened by LuyiTian over 7 years ago
#14 - Trailing whitespace in sample annotation causes bug
Issue -
State: closed - Opened by Shians over 7 years ago
- 1 comment
#13 - 0 indexing on barcode and UMI indices
Issue -
State: open - Opened by Shians over 7 years ago
#12 - Make function naming conventions consistent
Issue -
State: closed - Opened by Shians over 7 years ago
#11 - Updated Makevars and Mclust arguments
Pull Request -
State: closed - Opened by Shians over 7 years ago
#10 - Addressed some warnings
Pull Request -
State: closed - Opened by Shians over 7 years ago
#9 - Removed some warnings
Pull Request -
State: closed - Opened by Shians over 7 years ago
#8 - Added generic for organism
Pull Request -
State: closed - Opened by Shians over 7 years ago
#7 - Fixed a lot of notes
Pull Request -
State: closed - Opened by Shians over 7 years ago
#6 - Added imports and changed aes to aes_string
Pull Request -
State: closed - Opened by Shians over 7 years ago
#5 - Added proper handling of type argument in detect_outlier
Pull Request -
State: closed - Opened by Shians over 7 years ago
#4 - Added biocViews
Pull Request -
State: closed - Opened by Shians over 7 years ago
#3 - go_id removed from biomaRt?
Issue -
State: closed - Opened by LuyiTian almost 8 years ago
#2 - Changed barplot bar spacing
Pull Request -
State: closed - Opened by Shians almost 8 years ago
#1 - Timings
Issue -
State: closed - Opened by Shians almost 8 years ago