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Issues list

Additional gene problem
#392 opened May 15, 2024 by Cadaqoes
Using spatial transcriptomics data on Velocyto.py generates lower counts than Space Ranger
#391 opened May 8, 2024 by biyang-bioinfo
Inquiry on the input for running "velocyto run10x"
#390 opened May 3, 2024 by daisyko
velocyto on filtered or raw matrix or from matrix corrected ?
#389 opened Apr 8, 2024 by Sirin24
WARNING - The .bam file refers to a chromosome not present in the annotation (.gtf) file
#388 opened Feb 28, 2024 by sekekeretsu
2
OSError: truncated file is occured in cellranger-5.0.1-dirty output.
#387 opened Feb 26, 2024 by ilovegreentea
index file
#386 opened Jan 13, 2024 by sherinesaber
1
how do i generate the repeat sequences masked gtf file from Ensembl?
#385 opened Jan 12, 2024 by erzakiev
When and when not to use "repeat annotation mask" in 10X?
#384 opened Dec 27, 2023 by denvercal1234GitHub
Question about latent parameter t
#383 opened Dec 20, 2023 by taffy-miao
BlockingIOError: [Errno 35] 'Resource temporarily unavailable' on Mac OS X
#382 opened Dec 13, 2023 by YitengDang
Unable to run velocyto: samtools issue
#380 opened Nov 11, 2023 by millerkaplanlab
1
TypeError: create() got an unexpected keyword argument 'matrix'
#379 opened Nov 11, 2023 by zcaiwei
Passing velocyto samtools memory for sorting step
#378 opened Nov 9, 2023 by wudustan
ImportError: speedboosted.cpython-38-x86_64-linux-gnu.so: undefined symbol: __log10_finite
#377 opened Nov 1, 2023 by lili03080317
1
Get tons of warnings when running
#376 opened Oct 23, 2023 by dingyaozhang
1
Batch effects in combining multiple loom files
#375 opened Oct 5, 2023 by anshu957
2
ValueError: Column attribute 'Clusters' is not the same length (0) as number of columns in main matrix (3708)
#374 opened Sep 23, 2023 by denvercal1234GitHub
Error in run10X: logging.debug(f"Example of barcode: {valid_bcs_list[0].split('-')[0]} and cell_id: {valid_cellid_list[0]}") - IndexError: list index out of range
#373 opened Sep 20, 2023 by denvercal1234GitHub
1
AttributeError: 'NoneType' object has no attribute 'group'
#372 opened Aug 27, 2023 by danli349
Compatibility with non-string form for barcodes and UMIs
#369 opened Jun 27, 2023 by weir12
Multi-omic
#368 opened May 29, 2023 by zhangqc723
velocyto Index Out of Range
#367 opened May 23, 2023 by TamaraSall
Issues running velocyto
#366 opened May 16, 2023 by Battamama
1
Unexpected MemoryError: bam file #0 could not be sorted by cells.
#365 opened May 11, 2023 by monica-nicolau
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