User: Hugo

gravatar for Hugo
Hugo180
Reputation:
180
Status:
Trusted
Location:
Universidade de Vigo, Ourense (Spain)
Website:
http://www.sing-group....
Last seen:
3 days, 3 hours ago
Joined:
2 years, 4 months ago
Email:
h******@gmail.com

Posts by Hugo

<prev • 51 results • page 1 of 6 • next >
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Tool: SEDA (SEquence DAtaset builder): a desktop tool for processing FASTA files containing DNA and protein sequences
... Dear community members, We present [**SEDA**][1], an open source application for processing FASTA files containing DNA and protein sequences. The source code is available at [GitHub][2] and a complete user manual is available [here][3]. Among other operations, SEDA allow to filter sequences based ...
fasta bioinformatics java sequences tool written 9 days ago by Hugo180
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Tool: Compi: Application Framework for Portable Computational Pipelines
... Dear community members, We present [**Compi**][1], an open-source application development framework for portable computational pipelines. The source code is available at [GitHub][2] and the full documentation is available [here][3]. In addition, [Compi Hub][4] allows users to discover, browse and r ...
workflow management system pipeline docker tool written 7 weeks ago by Hugo180
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Comment: C: Extract several parts from fasta header
... **SEDA** (https://www.sing-group.org/seda/) has an operation to process FASTA headers and do this type of things. It is called *'Rename header'* (https://www.sing-group.org/seda/manual/operations.html#rename-header) and may be useful to you. You do not even need to install SEDA, you can use the Dock ...
written 9 months ago by Hugo180
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Comment: C: How To Rename FASTA Headers
... You may be interested in SEDA (https://www.sing-group.org/seda/), a user-friendly GUI-based tool with a powerful option to rename FASTA headers (https://www.sing-group.org/seda/manual/operations.html#rename-header). ...
written 10 months ago by Hugo180
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Comment: C: Sequence alignment viewer for a custom database
... Hi, are you looking for a specific platform/programming language? If Java is an option for you, the **GC4S** library (http://www.sing-group.org/gc4s/) has a easy-to-use component called *MultipleSequenceAlignmentViewerPanel* which can be used to display aligned sequences. You can see it in action he ...
written 10 months ago by Hugo180
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Comment: C: Extract sequence ID from Fasta for a given sequence
... Dear MAPK, if you usually work with FASTA files you may find SEDA (http://www.sing-group.org/seda/) an useful tool. It has a great variety of operations to manipulate, filter, and transform FASTA files (check out the manual to see all of them: https://www.sing-group.org/seda/manual/index.html). It a ...
written 14 months ago by Hugo180
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Comment: C: Find all fragments of n length in a larger sequence
... Dear myrmex, you may be interested in having a look at our SEDA software (https://www.sing-group.org/seda/download.html). It contains several functions for filter, transformation, and manipulation of FASTA files, including operations to perform batch BLAST queries (https://www.sing-group.org/seda/ma ...
written 14 months ago by Hugo180
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Answer: A: how to change fasta headers?
... Dear colleague, I think that you may also find useful the **SEDA** software (http://sing-group.org/seda/ ). As you can see in the manual (https://www.sing-group.org/seda/manual ), it has a lot of different customizable operations to process FASTA files, including operations to reformat sequence he ...
written 15 months ago by Hugo180 • updated 15 months ago by finswimmer13k
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Comment: C: How to concatenate multiple fasta file
... Hi, **SEDA** (https://www.sing-group.org/seda) has an operation named *"Concatenate sequences"* (https://www.sing-group.org/seda/manual/operations.html#concatenate-sequences) aimed to do what you ask for. However, to use it, you need that the sequence names or identifiers to be identical, so you wil ...
written 16 months ago by Hugo180
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Comment: C: Removing gaps from fasta sequence file
... Hi, you can also use the "Undo alignment" function of the SEDA software (https://www.sing-group.org/seda/manual/operations.html#undo-alignment). Regards. ...
written 16 months ago by Hugo180

Latest awards to Hugo

Scholar 20 months ago, created an answer that has been accepted. For A: Renaming FASTA headers while keeping some previous information?
Scholar 22 months ago, created an answer that has been accepted. For C: Ballgown data reading problem
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: Renaming FASTA headers while keeping some previous information?
Scholar 22 months ago, created an answer that has been accepted. For C: Ballgown data reading problem

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