User: rah

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rah20
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Posts by rah

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Low Mapping percentage with Minimap2 due to contamination
... Thank you, ill give it a look ...
written 3 months ago by rah20
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Comment: C: Low Mapping percentage with Minimap2 due to contamination
... Thanks for suggesting to cut the reads into smaller pieces, because one of my problems has exactly been im having long reads. ...
written 3 months ago by rah20
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Low Mapping percentage with Minimap2 due to contamination
... Hi everyone, Im analysing Oxford Nanopore sequenced DNA in human cells, which i align to the hg19 UCSC reference genome. Most of the time i get a high mapping percentage, however in a few cases i get mapping percentages below 5%. Of course im able to tune the parameteres of minimap2 a bit, but i ...
minimap2 reference genome mapping nanopore written 3 months ago by rah20
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Comment: C: Extract several parts from fasta header
... It looks really useful. Thanks! ...
written 4 months ago by rah20
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Comment: C: Extract several parts from fasta header
... Thanks for your suggestions for both options. ...
written 4 months ago by rah20
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Comment: C: Extract several parts from fasta header
... Because i didn't think of that, all of the examples i could find handling fasta headers was using grep, so i thought i might as well stay with using grep. well that worked perfectly, thanks ...
written 4 months ago by rah20
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Extract several parts from fasta header
... I'm looking for a way to create an text file containing some information about sequence reads, extracted from a .fasta file. Either by using grep, sed or awk. Basically i have several fasta sequences which i have trimmed, so i an example of a header for a trimmed fasta file with a sequence where i ...
fasta grep sed unix bash written 4 months ago by rah20
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Comment: C: Bash: For loop with two statements, first statements as input to second with .fa
... Thanks for your respons, i'll give it a try when im doing my next round of analysis. ...
written 4 months ago by rah20
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Comment: C: Bash: For loop with two statements, first statements as input to second with .fa
... Thank you, nicely noticed. ...
written 4 months ago by rah20
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Bash: selecting directory and fasta files from assembly
... I'm doing de novo assembling of several .fasta files using the Unicycler tool, and i want to handle the output directories of the assembly as well as the original .fasta file. When the assembling finishes it creates a directory for each assembly, and i'm naming it similarly to the name of the origi ...
assembly .fasta unix bash written 4 months ago by rah20

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