User: asidhu
asidhu • 10
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Posts by asidhu
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... I'm struggling to create a sliding window that will loop through sequences (first 30 nucleotides) and identify the forward primer to later trim the primer from the sequences. The file being used as a FASTA file with around 3400 sequences.
filename = "paired.fasta"
min_length = 150
...
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... Thank you so much! This is exactly what I was looking for. I'm still new to python and practicing :)
Just a question, if I wanted to edit the seq.fasta file such that only the good reads remained in it, is that possible? In your solution there is a new good_reads.fasta which works perfectly but if ...
written 18 months ago by
asidhu • 10
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... Thank you for this! I was instructed not to use Biopython otherwise this would have been the perfect method! ...
written 18 months ago by
asidhu • 10
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... I am using a FASTA file with many sequences that I wish to filter. An example of the file is as follows:
>SRR5533383:0::12:0:0:0:
GTGCCAGCAGCCGCGGTAATACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGGCGGACTATTAAGTCAGCTGAGAAAGTTTGCGGCTCAACCGTAAAATTG$
>SRR5533383:0::19:0:0:0:
G ...
written 18 months ago by
asidhu • 10
• updated
18 months ago by
Heather Ward • 50
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... I'm trying to create a pipeline that converts FASTQ --> VCF and it would include the option of single-end and paired-end reads. I am a little bit confused about how to approach this for paired-end reads as they are more complicated. For single-end pairs I've done the following steps:
- Demultip ...
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... I'm using the ubuntu app to install and launch ncbi-blast-2.7.1+ on Windows 10 and I am struggling as I've been following instructions from the following tutorials: https://www.blaststation.com/intl/members/en/howtoblastwin.html https://github.com/enormandeau/ncbi_blast_tutorial/blob/master/README.m ...
written 19 months ago by
asidhu • 10
• updated
19 months ago by
lakhujanivijay ♦ 5.0k
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