cellranger Posts

C: replace gene names in gff file by arunprasanna83 • 30
Hi Juke, Thanks for suggesting AGAT. It does work, but the problem is the naming is too long. For...
C: No mutations or copy number alterations was detected in stage I of cancer by nazaninhoseinkhan • 390
Sure, thank u German
C: No mutations or copy number alterations was detected in stage I of cancer by German.M.Demidov • 950
Check out this paper https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5720395/ - it is not about alte...
A: replace gene names in gff file by Juke-34 • 3.1k
I would suggest to use agat_sp_manage_IDs.pl from [AGAT][1]. In same time it will standardize you...
C: No mutations or copy number alterations was detected in stage I of cancer by nazaninhoseinkhan • 390
Thank you so much for the explanation
C: No mutations or copy number alterations was detected in stage I of cancer by German.M.Demidov • 950
No mutations is indeed strange. Do you use panel sequencing? 1) tumor may be driven by epigeneti...
C: How to view gi_taxid_nucl.dmp that is 11.3 GB from NCBI by Ahill • 1.6k
On Windows, presuming the .dmp files are a delimited text format, you can view using the [more][1...
A: error in mat2csv ValueError: Shape of passed values is (4926, 33694), indices im by yueli7 • 80
should have a gene.tsv file
A: mat2csv IOError: Not a valid path to a feature-barcode mtx directory: '/home/li/ by yueli7 • 80
should have a gene.tsv file
C: How to view gi_taxid_nucl.dmp that is 11.3 GB from NCBI by peggyw • 0
sqlLite - interesting and not heard of grep. Windows is my primary tool, yes I know we are all ...
A: How to view gi_taxid_nucl.dmp that is 11.3 GB from NCBI by peggyw • 0
wrong place to post
C: How to view gi_taxid_nucl.dmp that is 11.3 GB from NCBI by Ahill • 1.6k
Google 'gi_taxid_nucl.dmp.gz' yields a 2013 article https://www.polarmicrobes.org/some-things-sho...