repeatscout, run filter-stage-1.prl and get empty file
hello everyone i m try to work with repeatscout but every time when i m runninf filter-stage-1.prl, the filtered library generated is created empty( no data)..... any solution???
genome
annotation
• 1,651 views
•
link
updated
by
Chironex •
•
written
by
biologo •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Treemix is taking too long running
written by Camila Martínez •Hello everyone! I'm trying to run TreeMix with conda. I first created a new environment and installed Treemix (conda install treemix -c bioconda -c conda-forge). …
-
Filtering reads from aligned scRNA reads BAM file by filtered cells barcodes (CB)
written by MYousry •Hello Everyone, I passed my scRNA fastq data (R1 & R2) through STARsolo to align the reads with genome and produce the count matrix. I …
-
bowtie2 unaligned option not writing to file
written by daewowo •I am using the following command to align with bowtie2 cmd = f"bowtie2 -x {BOWTIE_REF} -1 {fastq_1} -2 {fastq_2} -S {out_file} --threads {NUM_THREADS} --local --score-min …
-
Variant calling with duplicates
written by storm1907 •Hello, I would like to check how viral RNA Seq called variants look before read duplicate removal. However, when I try to filter seq files …
-
Repetitive elements on my genome
written by Chironex •I'm analyzing mygenome.fa with RepeatScout and RepeatMasker to find transposable elements. I produced a library of Repetitive elements with repeatscout and the I masked TE …
-
repeatscout installation: problem with filter stage
written by Chironex •I've installed Repeatscout in the cluster from https://bix.ucsd.edu/repeatscout/. I've also installed TRF and nseg required by the program. I followed the steps: ``` build_lmer_table -l …
-
RepeatScout filtering errors
written by Chironex •Hello everybody I was trying to use RepeatScout. I was following some steps one by one to analyze my sequences. Here there are the passages: …
-
Note: Neither --ploidy nor --ploidy-file given, assuming all sites are diploid [mpileup] 1 samples …
written by Aamiralizai •Hello everyone i am facing a problem while run a command to call variant, i am using sorted.bam file (generated by picard-tools-1.119) $SOFTWARE/samtools mpileup -d8000 …
-
gene filtering for agilent microarray using Limma
written by rohit •<p>Hello everyone,</p> <p>I'm analysing agilent microarray data using limma package. I want to do gene filter to remove the probes that do not give any …
-
limma missing green channel (Agilent two color microarray)
written by moroch •Hi everyone, I am trying to analyse microarray data using the limma package. When I do it at my work computer I get no problems …
I have the same problem, there is anyone which can help us?