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Unable to run with spatial bam

Status: Open.

#44 In OceanGenomics/mudskipper;

· chrisquatjr opened on Jul 5, 2024

No mapped read in output bam with gff file

Status: Open.

#43 In OceanGenomics/mudskipper;

· steven-bioinfo opened on Apr 18, 2024

assertion failure: last>=first

Status: Open.

#35 In OceanGenomics/mudskipper;

· lkmack21 opened on May 18, 2023

Differences in quantification when using transcriptome BAM from Muskipper or STAR

Status: Open.

#34 In OceanGenomics/mudskipper;

· osvaldoreisss opened on Dec 5, 2022

'main' panicked at 'index out of bounds: the len is 1 but the index is 1'

Status: Open.

#24 In OceanGenomics/mudskipper;

· aleighbrown opened on May 2, 2022

Compile errors

Status: Open.

#23 In OceanGenomics/mudskipper;

· jdidion opened on Apr 25, 2022

Build a unmapped barcode frequency table

enhancementNew feature or requestNew feature or request

Status: Open.

#18 In OceanGenomics/mudskipper;

· haghshenas opened on Jan 4, 2022

Recover cell barcode if it contains a single N only

enhancementNew feature or requestNew feature or request

Status: Open.

#15 In OceanGenomics/mudskipper;

· haghshenas opened on Dec 15, 2021

Properly set the flag for secondary alignments

bugSomething isn't workingSomething isn't working

Status: Open.

#13 In OceanGenomics/mudskipper;

· haghshenas opened on Dec 9, 2021

Support overhanging alignments

enhancementNew feature or requestNew feature or request

Status: Open.

#10 In OceanGenomics/mudskipper;

· haghshenas opened on Dec 3, 2021

Off by one error in setting the number of threads

enhancementNew feature or requestNew feature or request

Status: Open.

#9 In OceanGenomics/mudskipper;

· haghshenas opened on Dec 1, 2021

Reading from SAM with multiple threads

bugSomething isn't workingSomething isn't working

Status: Open.

#6 In OceanGenomics/mudskipper;

· haghshenas opened on Nov 24, 2021