User: TWV

gravatar for TWV
TWV50
Reputation:
50
Status:
New User
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Last seen:
6 months, 2 weeks ago
Joined:
11 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 9 months ago by TWV50
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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 10 months ago by TWV50 • updated 10 months ago by chen1.7k
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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 10 months ago by TWV50 • updated 10 months ago by Devon Ryan85k
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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 10 months ago by TWV50
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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 10 months ago by TWV50 • updated 8 months 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 11 months ago by TWV50
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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 11 months ago by TWV50
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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 11 months ago by TWV50

Latest awards to TWV

Scholar 10 months ago, created an answer that has been accepted. For A: recon issue for repeatmodeler
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: recon issue for repeatmodeler

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