User: TWV

gravatar for TWV
TWV30
Reputation:
30
Status:
New User
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Last seen:
2 weeks, 6 days ago
Joined:
5 months ago
Email:
t*******************@kuleuven.be

Posts by TWV

<prev • 8 results • page 1 of 1 • next >
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How to remove all_fasta and other data table entries on Galaxy
... How can one remove entries (e.g. genomes) made in data tables (e.g. all_fasta) on a local galaxy instance? Is it possible to modify these entries as well? E.g. if I want to change the name of a genome from "Harm" to "helicoverpa armigera"? I read somewhere that this is not possible, without doing i ...
data table galaxy remove written 3 months ago by TWV30
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Remove masked (N) based from reads in fastq library
... I am trying to remove all masked bases from a fastq library of reads. The reads are as follows: GTCAGTCNNNNNNNNN with the Ns at the 3' end. Is there some script or comand to remove the Ns from the reads? ...
reads remove masked cutadapt written 4 months ago by TWV30 • updated 4 months ago by chen1.5k
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Galaxy email address whitelist, grace period and unactivated user quotas
... I am setting up a small Galaxy server to be used in our research group. I wish to make it so only people from our institution can register a user account and use the server. I see there is an option to hinder users from making accounts using disposable email addresses ( blacklist_file path paramete ...
whitelist galaxy written 4 months ago by TWV30 • updated 4 months ago by Devon Ryan78k
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Obtain fasta file of tblastn hits selected by coverage and similarity
... I am trying to identify DNA transposons in a newly sequenced insect. One of the ways to do this is by performing a tblastn of known DNA-transposase proteins towards the genome. I therefore downloaded a .fasta file with DNA-transposase protein sequences and now want to blast them all to my genome, w ...
tblastn blast written 4 months ago by TWV30
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How to make and use a RepeatMasker custom library
... I am trying to run RepeatMasker on an insect genome using the following parameters: RepeatMasker -species Lepidoptera -nolow -dir RM_Lepidoptera_Intersped -cutoff 250 Genome.fasta Unfortunately I get no transposon hits (only some rRNA class repeats), I think that this is due to RepeatMasker no ...
transposon repeatmasker library written 4 months ago by TWV30 • updated 12 weeks ago by Federico Lopez20
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Answer: A: Script convert ltr_finder output file to fasta format
... First use cnv_ltrfinder2gff.pl to convert the output to gff format, then use bedtools getfasta to convert gff to a fasta list. ...
written 5 months ago by TWV30
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Comment: C: Script convert ltr_finder output file to fasta format
... Have you found a solution? if so, please share. Same question here. ...
written 5 months ago by TWV30
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Answer: A: recon issue for repeatmodeler
... Have you compiled RECON? If not, open a terminal in the src folder, then run " make" and then "make install". Next in the script "recon.pl" in the scripts directory -- on the third line, add the path to the binaries (the bin directory here) between the double quotes. I know this answer is too late ...
written 5 months ago by TWV30

Latest awards to TWV

Scholar 4 months ago, created an answer that has been accepted. For A: recon issue for repeatmodeler
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: recon issue for repeatmodeler

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