09-05-2018
Quote:
Thanks vgersh99. Code worked perfectly
I'd suggest following
this user for the similar scientific threads.
Like
this one.
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Hello All - I am looking for help on how to solve a re-occuring problem. I have a file with certain sequences in it that need to be removed. The sequences are always different but the fix is always the same remove those sequences and leave the rest. Another team ID's the bad sequences and then I... (3 Replies)
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Hey,
I've been trying to break a massive fasta formatted file into files containing each gene separately. Could anyone help me? I've tried to use the following code but i've recieved errors every time:
for i in *.rtf.out
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awk '/^>/{f=++d".fasta"} {print > $i.out}' $i
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Hi,
I am having a file of dna sequences in fasta format which look like this:
>admin_1_45
atatagcaga
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I have two files. File1 is shown below.
>153L:B|PDBID|CHAIN|SEQUENCE
RTDCYGNVNRIDTTGASCKTAKPEGLSYCGVSASKKIAERDLQAMDRYKTIIKKVGEKLCVEPAVIAGIISRESHAGKVL
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Hello,
I have 10 fasta files with sequenced reads information with read sizes from 15 - 35 . I have combined the reads and collapsed in to unique reads and filtered for sizes 18 - 26 bp long unique reads. Now i wanted to count each unique read appearance in all the fasta files and make a table... (5 Replies)
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I have a fasta file as follows
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MCDAFVGTWKLVSSENFDDYMKEVGVGFATRKVAGMAKPNMIISVNGDVITIKSESTFKN
TEISFILGQEFDEVTADDRKVKSTITLDGGVLVHVQKWDGKSTTIKRKREDDKLVVECVM
KGVTSTRVYERA
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Hi
How can I extract sequences from a fasta file with respect a certain criteria? The beginning of my file (containing in total more than 1000 sequences) looks like this:
>H8V34IS02I59VP
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Hi,
I have to add 7 bases of specific nucleotide at the beginning and ending of all the fasta sequences of a file. For example, I have a multi fasta file namely test.fasta as given below
test.fasta
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LEARN ABOUT MOJAVE
uri::url5.18
URI::URL(3) User Contributed Perl Documentation URI::URL(3)
NAME
URI::URL - Uniform Resource Locators
SYNOPSIS
$u1 = URI::URL->new($str, $base);
$u2 = $u1->abs;
DESCRIPTION
This module is provided for backwards compatibility with modules that depend on the interface provided by the "URI::URL" class that used to
be distributed with the libwww-perl library.
The following differences exist compared to the "URI" class interface:
o The URI::URL module exports the url() function as an alternate constructor interface.
o The constructor takes an optional $base argument. The "URI::URL" class is a subclass of "URI::WithBase".
o The URI::URL->newlocal class method is the same as URI::file->new_abs.
o URI::URL::strict(1)
o $url->print_on method
o $url->crack method
o $url->full_path: same as ($uri->abs_path || "/")
o $url->netloc: same as $uri->authority
o $url->epath, $url->equery: same as $uri->path, $uri->query
o $url->path and $url->query pass unescaped strings.
o $url->path_components: same as $uri->path_segments (if you don't consider path segment parameters)
o $url->params and $url->eparams methods
o $url->base method. See URI::WithBase.
o $url->abs and $url->rel have an optional $base argument. See URI::WithBase.
o $url->frag: same as $uri->fragment
o $url->keywords: same as $uri->query_keywords
o $url->localpath and friends map to $uri->file.
o $url->address and $url->encoded822addr: same as $uri->to for mailto URI
o $url->groupart method for news URI
o $url->article: same as $uri->message
SEE ALSO
URI, URI::WithBase
COPYRIGHT
Copyright 1998-2000 Gisle Aas.
perl v5.18.2 2012-02-11 URI::URL(3)