User: EBP91

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EBP910
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Posts by EBP91

<prev • 8 results • page 1 of 1 • next >
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Comment: C: get size information from an OTU table into a fastafile for use in USEARCH/VSEAR
... Yes! Thanks again for your tip. ...
written 2.0 years ago by EBP910
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Comment: C: Extract fasta sequences from a file using a list in another file.
... Yes, I have been entirely through that thread (and several others) before posting here. ...
written 2.0 years ago by EBP910
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Comment: C: Extract fasta sequences from a file using a list in another file.
... Did the job! Thanks! ...
written 2.0 years ago by EBP910
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Comment: C: Extract fasta sequences from a file using a list in another file.
... Thanks! I adjusted it a bit. It should be fine now. ...
written 2.0 years ago by EBP910
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Extract fasta sequences from a file using a list in another file.
... I have a question concerning the extraction of sequences from a fasta file (>7000 sequences) using a reference .txt file with sequence headers. I have been playing around and been looking all over the internet to find a solution for this problem, but surprisingly, nothing really matches what I wa ...
fasta grep header extract awk written 2.0 years ago by EBP910 • updated 2.0 years ago by cpad011213k
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Comment: C: get size information from an OTU table into a fastafile for use in USEARCH/VSEAR
... Thanks for the tips! I have been playing around with the python script I found in [replace fasta headers with another name in a text file][1] and managed to get it to work on a rather archaic, yet effective way, by 1) getting rid of the 'Zotu' notation in the .txt file, 2) sort the .txt file using ...
written 2.1 years ago by EBP910
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Comment: C: get size information from an OTU table into a fastafile for use in USEARCH/VSEAR
... 1) No, I have one sequence with the name Zotu1 in this fasta file. However, based on my reference mapping (-usearch_global command), I know that I have 6047 sequences in my total dataset that have been mapped to the reference 'Zotu1'. These sequences might be, but do not necessarily have to be, iden ...
written 2.1 years ago by EBP910
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get size information from an OTU table into a fastafile for use in USEARCH/VSEARCH
... I have two files (see below for the actual format): a fasta file with > 7000 sequences and a .txt file consisting of two columns. The first column in the .txt file corresponds with the name in the fasta file (minus the tail ';size=') and the second column gives the total number of sequences corre ...
fasta header otu table written 2.1 years ago by EBP910

Latest awards to EBP91

Great Question 14 months ago, created a question with more than 5,000 views. For Extract fasta sequences from a file using a list in another file.
Popular Question 2.0 years ago, created a question with more than 1,000 views. For Extract fasta sequences from a file using a list in another file.

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