r3fang/SnapTools issues and pull requests

#41 - how to generate ArchR input files using snap file?

Issue - State: open - Opened by taolin1994 about 2 years ago

#40 - Could not retrieve index file

Issue - State: closed - Opened by Nuwah12 over 2 years ago

#39 - snaptools align-paired-end fail to open bam file

Issue - State: open - Opened by mAGLAVE over 2 years ago - 1 comment

#38 - Custom genome name

Issue - State: open - Opened by kgj1234 about 3 years ago - 2 comments

#37 - Error creating a snap file from Cellranger's fragment bed.gz file

Issue - State: open - Opened by pabloswfly about 3 years ago - 1 comment

#36 - MACS2 error

Issue - State: open - Opened by mijhamilt over 3 years ago

#35 - tagged release

Issue - State: open - Opened by EricDeveaud over 3 years ago

#34 - is GRCh38 reference compatible with “snaptools align-paired-end”?

Issue - State: open - Opened by shhxiao19 almost 4 years ago

#33 - Bug in isBedQuerynameSorted()

Issue - State: open - Opened by kridsadakorn almost 4 years ago

#32 - The sdev of smat slot is NAN (DiffusionMaps)

Issue - State: open - Opened by ChangliangWang almost 4 years ago

#31 - Fix broken formatting: reformat everything with `black`

Pull Request - State: open - Opened by mruffalo over 4 years ago

#30 - Remove generated files

Pull Request - State: open - Opened by mruffalo over 4 years ago

#29 - Fix MACS2 call under Python 3

Pull Request - State: open - Opened by mruffalo over 4 years ago

#28 - Trouble running runKNN()

Issue - State: open - Opened by suminwei2772 over 4 years ago

#27 - Error in runJaccard

Issue - State: open - Opened by yqshao17 over 4 years ago

#26 - Fix shebang

Pull Request - State: open - Opened by hisplan over 4 years ago

#25 - Error running snap-add-pmat

Issue - State: open - Opened by drbecavin over 4 years ago - 1 comment

#24 - Dump Read Slow

Issue - State: open - Opened by suragnair over 4 years ago

#23 - Number of barcodes doesn't match with cellranger output.

Issue - State: open - Opened by NKleinenkuhnen over 4 years ago - 1 comment

#22 - memory issue with creating snap-pre

Issue - State: closed - Opened by danielgchen almost 5 years ago - 3 comments

#21 - memory issue with creating bam file with snaptools align paired reads

Issue - State: open - Opened by danielgchen almost 5 years ago - 1 comment

#20 - Release 1.4.8 on PyPi, v1.2.3 on GitHub

Issue - State: closed - Opened by Maarten-vd-Sande almost 5 years ago - 2 comments

#19 - Possible issue with uint8 in bmat

Issue - State: open - Opened by dawe about 5 years ago - 3 comments

#18 - Documentation for handling snap files

Issue - State: open - Opened by dawe about 5 years ago

#17 - snap-add-pmat naming inconsistancy Warning

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

#16 - creating snap files from another processing pipeline

Issue - State: open - Opened by dawe about 5 years ago - 3 comments

#15 - Error running snaptools snap-pre

Issue - State: open - Opened by Austin-s-h about 5 years ago - 3 comments

#14 - Annotation of additional data to single barcodes/cells

Issue - State: open - Opened by cschmidl about 5 years ago - 1 comment

#13 - Mouse and Human Mixed Data Experiment - Alignment Reference

Issue - State: open - Opened by znavidi over 5 years ago - 4 comments

#12 - Barcode Sequencing Errors

Issue - State: open - Opened by Austin-s-h over 5 years ago - 2 comments

#11 - Question about adding Genomes in snaptools snap-pre

Issue - State: closed - Opened by Austin-s-h over 5 years ago - 2 comments

#10 - Incorrect read counts for bin matrix?

Issue - State: closed - Opened by timoast over 5 years ago - 1 comment

#9 - add leiden functionality

Pull Request - State: closed - Opened by wayneidoyle over 5 years ago

#8 - Issue with installation

Issue - State: closed - Opened by smanne07 over 5 years ago - 3 comments

#7 - Cyclic dependency for make bmat

Issue - State: open - Opened by Zepeng-Mu over 5 years ago - 3 comments

#6 - Out of memory - snap object

Issue - State: open - Opened by aalvarezf over 5 years ago - 9 comments

#5 - snap-add-gmat error

Issue - State: open - Opened by plbngl over 5 years ago - 6 comments

#4 - Error in making snap object

Issue - State: open - Opened by seishin0125 over 5 years ago - 6 comments

#3 - add_bmat to snap file that already have bmat

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

#2 - QC file mostly showing zeros.

Issue - State: open - Opened by shawnzhangyx over 5 years ago - 9 comments

#1 - bam file to the snap format?

Issue - State: open - Opened by shawnzhangyx over 5 years ago - 1 comment

GitHub / r3fang/SnapTools issues and pull requests