User: Nottuh

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Nottuh10
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2 years, 2 months ago
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Posts by Nottuh

<prev • 8 results • page 1 of 1 • next >
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Pseudogene Parent Genes Discovery
... Hi, I have predicted pseudogenes in *Populus trichocarpa* using Shiu's pipeline and want to know the parent genes of these predicted pseudogenes. I performed blastn with predicted pseudogene sequences as query input and "the concatenated exonic DNA sequence per locus/transcript (coding genes only), ...
gene sequence alignment written 20 months ago by Nottuh10
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Comment: C: Trimmomatic Unknown Trimmer Error for Output File
... Hi Genomax, I thought the '-version' parameter was optional, but leaving it out gave me the usage output you just posted before. You asked me about phred33 vs phred64 and I was mistaken. I based myself on the following site: https://www.drive5.com/usearch/manual/quality_score.html But with this in ...
written 20 months ago by Nottuh10
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Comment: C: Trimmomatic Unknown Trimmer Error for Output File
... When trying to load trimmomatic by typing `trimmomatic` it returns the following output, showing how it is intended to be used. SE [-version] [-threads ] [-phred33|-phred64] [-trimlog ] [-quiet] ... Note that I am using version 0.36 of Trimmomatic and the Trimmomatic manual I found online da ...
written 20 months ago by Nottuh10
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Trimmomatic Unknown Trimmer Error for Output File
... Hi, I've seen that multiple people have encountered an 'Unknown trimmer' error when using Trimmomatic and unfortunately me too. The code and output I use and receive are written below. CODE: for num in {1121292..1121303} do java -jar /software/shared/apps/x86_64/trimmomatic/0.36/trim ...
trimmomatic rna-seq written 20 months ago by Nottuh10
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Comment: C: Introducing FilterByTile: Remove Low-Quality Reads Without Adding Bias
... Hi, I've downloaded some SE RNA-Seq samples and ran FastQC on the files. After inspection of the output, I decided that I would want to filter out the worst reads from the tile if FastQC reports a "fail" for both the "per base sequence quality" and the "per tile sequence quality" before I map the r ...
written 20 months ago by Nottuh10
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Comment: C: BLAST+ error: No alias or index file found for nucleotide database
... That unfortunately didn't do it. ...
written 2.2 years ago by Nottuh10
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Comment: C: BLAST+ error: No alias or index file found for nucleotide database
... It didn't work, I still got the same error. ...
written 2.2 years ago by Nottuh10
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BLAST+ error: No alias or index file found for nucleotide database
... Hi, I'm trying to run tblastn, but whatever I try, I always get back the following error: BLAST Database error: No alias or index file found for nucleotide database [Ptr_protDB] in search path [/home/cadav/Thesis/VanDePeerPSgenes/Shiu_Pipeline/BLAST_output::] I've looked around the internet fo ...
genome written 2.2 years ago by Nottuh10 • updated 2.2 years ago by toralmanvar840

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Popular Question 20 months ago, created a question with more than 1,000 views. For BLAST+ error: No alias or index file found for nucleotide database

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