User: hlfzeus

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hlfzeus50
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Posts by hlfzeus

<prev • 19 results • page 1 of 2 • next >
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Comment: C: Extracting specific IDs + sequence from multifasta
... You may be interested in using SEDA (http://www.sing-group.org/seda/), which has different functions for extracting and filtering sequence identifiers. Regards. ...
written 3 days ago by hlfzeus50
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Comment: C: Changing fasta headers in multifasta file
... Dear James, you may also be interested in SEDA (http://www.sing-group.org/seda/), a desktop software that incorporates a lot of functions for processing FASTA files. One of that functions is the "Rename header", which allows you changing headers in different ways. Regards. ...
written 7 days ago by hlfzeus50
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Comment: C: how can I align several fastq files with hisat2 and get htseq-count
... Maybe DEWE (Differential Workflow Executor for RNA-Seq) can be helpful to you: http://www.sing-group.org/dewe It provides a user friendly GUI to run HISAT2, convert aligments to bam and run htseq-count. Regards. ...
written 9 days ago by hlfzeus50
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Answer: A: Editing header by adding pipe in fasta file
... Dear Muhammad, I would suggest you to try the "Rename header" option of SEDA (http://www.sing-group.org/seda/). Section 3.8.4 "Add prefix/suffix" of the manual explains you how to easily achieve what you want: first add a word (prefix "sp|") before the header id and then add a word (suffix "|") afte ...
written 10 days ago by hlfzeus50
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Answer: A: Renaming FASTA headers while keeping some previous information?
... Dear Alec, I would suggest you to try the "Rename header" option of SEDA (http://www.sing-group.org/seda/). Section 3.8.4 "Add prefix/suffix" of the manual explains you how to easily achieve what you want: add an index after the header id. Do not hesitate contact me if you need some help. Regards, ...
written 15 days ago by hlfzeus50
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Comment: C: Trim the ID line of a fasta
... In case you are interested in obtaining such headers using a desktop GUI application, you may have a look at our SEDA software (http://www.sing-group.org/seda/). It has different options for processing headers as well as obtaining them using the "Statistics" option. Regards. ...
written 16 days ago by hlfzeus50
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Comment: C: StringTie cannot be run as a problem in naming convention
... If you are experiencing command line issues, you may be interested in DEWE (http://www.sing-group.org/dewe), a GUI to execute differential expression analyses that also allows you to use StringTie separately. Regards. ...
written 18 days ago by hlfzeus50
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Comment: C: how to subset sequences based on IDs, but order shall remain preserved?
... They should be working now. ...
written 23 days ago by hlfzeus50
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Answer: A: how to subset sequences based on IDs, but order shall remain preserved?
... Hello, we are currently developing SEDA http://www.sing-group.org/seda, a multi-platform application for processing and filtering FASTA files. I guess that what you need can be achieved with the "Pattern filtering" option, section 3.2 of the manual: http://www.sing-group.org/seda/downloads/manuals/ ...
written 23 days ago by hlfzeus50
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Comment: C: What kind of sequences I have, haploid or diploid?
... Hi Enrique, if you are working with sequence files in FASTA format, maybe you can be interested in our SEDA (http://www.sing-group.org/seda/) application for easily processing FASTA files (filtering, merging, modifying headers, and so on). Regards, Hugo. ...
written 25 days ago by hlfzeus50

Latest awards to hlfzeus

Scholar 15 days ago, created an answer that has been accepted. For C: Ballgown data reading problem
Teacher 15 days ago, created an answer with at least 3 up-votes. For A: Renaming FASTA headers while keeping some previous information?
Scholar 4 weeks ago, created an answer that has been accepted. For C: Ballgown data reading problem

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