Comments (4)
You only select one nucleotide from the read (from position 1 to 1). The highlighted section is from position 2 to 9, so using -s 2 -e 9
on the command line should select what you want.
from demultiplex.
Thanks for your answer. I mistype the question. I actually used "demultiplex demux -r -s 1 -e 12", but it doesn't work. I don't think the problem is with the command line. Are there any other places that can go wrong?
from demultiplex.
Even with -s 1 -e 12
, you select 12 nucleotides from the read, but your barcodes are of length 8.
from demultiplex.
I tried and it worked! Thank you so much.
from demultiplex.
Related Issues (20)
- demultiplex match outputs all input reads to each barcode HOT 3
- dealing with conflicts HOT 5
- Output HOT 12
- tags 5' and 3' in two different files usage HOT 1
- Paired end support for match. HOT 2
- Dual barcodes with match HOT 3
- demultiplexing illumina with forward and reverse tag HOT 1
- positions for barcodes do not work at all! HOT 1
- Degenerated constructs HOT 5
- Does demultiplex support hamming distance? HOT 1
- Is it possible for the barcode to contain non-ATCG characters? HOT 1
- demultiplex unknown results HOT 4
- pairwise2.py doesn't work. Biopython deprecated it. HOT 4
- Does demultiplex pick up where it left off? HOT 1
- Does this tool works for Cell hashing data generated for cell ranger multi? HOT 3
- Demultiplex cannot separate read-pairs by R1 barcode and R2 barcode simultaneously if at least either of the two is found HOT 10
- Demultiplex v1.2.2 misses barcodes starting with a (series of) DELetions aka supposedly incompletely amplified PCR products HOT 11
- Demultiplex with i7 index on dual index FASTQ HOT 2
- demultiplex does not find any barcodes if -e NUM is larger than lenghth of the shortest actually provided barcode in a TSV file HOT 11
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