User: Hugo

gravatar for Hugo
Hugo150
Reputation:
150
Status:
Trusted
Location:
Universidade de Vigo, Ourense (Spain)
Website:
http://www.sing-group....
Last seen:
1 month, 2 weeks ago
Joined:
1 year, 10 months ago
Email:
h******@gmail.com

Posts by Hugo

<prev • 49 results • page 1 of 5 • next >
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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 3 months ago by Hugo150
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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 4 months ago by Hugo150
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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 4 months ago by Hugo150
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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 8 months ago by Hugo150
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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 8 months ago by Hugo150
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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 9 months ago by Hugo150 • updated 9 months ago by finswimmer11k
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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 10 months ago by Hugo150
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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 10 months ago by Hugo150
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Comment: C: Remove sequences <300 bases from FASTA file
... Other people gave you excellent solutions. Nevertheless, you may be also interested in **SEDA** (http://www.sing-group.org/seda/ ), an open-source tool for processing FASTA files. Among other functions, it provides an operation to apply different filters, including sequence length (https://www.sing- ...
written 10 months ago by Hugo150 • updated 10 months ago by finswimmer11k
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Comment: C: Tuxedo RNA Seq Novice Please Help
... As a complement to previous answers, **DEWE** (http://sing-group.org/dewe/) offers a user-friendly GUI to run the HISAT2, StringTie and Ballgown workflow, with the addition of edgeR to the DE analysis stage. It also produces a rich variety of outputs related with the DE results. Regards. ...
written 11 months ago by Hugo150

Latest awards to Hugo

Scholar 14 months ago, created an answer that has been accepted. For A: Renaming FASTA headers while keeping some previous information?
Scholar 16 months ago, created an answer that has been accepted. For C: Ballgown data reading problem
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: Renaming FASTA headers while keeping some previous information?
Scholar 17 months ago, created an answer that has been accepted. For C: Ballgown data reading problem

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