Ciao,
I'm a Bioinformatics newbie encountering an issue with STAR alignment. I downloaded the mm10 genome and indexed it with Bowtie 2. When...
31 results in 0.0064 seconds.
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Indexing -bowtie2, aligning - STAR and FATAL ERROR
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STAR aligner : number of read
Hi,
Im' using star to map RNAseq sample in pair-end. But when I check the "..._Log.final.out" file it's mentioned for "number of... -
End-to-End Bulk RNAseq Analysis on Demand
Hi everyone,
Really excited to be a part of this community. I am one of the team members of BioBox Analytics. We're a group of former... -
What RNAseq mapper to use?
Hello everyone,
I am dealing with NGS data for the first time, so I am very new to everything. When I was looking for a read mapper for... -
Very low % of reads showing primary alignment to transcriptome
Dear users,
I have recently started analyzing RNA-Seq data for gene expression analysis, hence am quite new to the field.
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BAM -> FASTQ why can I not produce the same result?
Dear all, I've been trying to test if I can produce the same fusion call starting from BAM instead of FASQ. My STAR command is as such.
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Running STAR on Windows WSL
WSL can be a great option for those that need to have a Windows OS and cannot access a Linux server.
I have tried to run STAR from Windows WSL... -
High percentage of STAR unmapped reads: too short
Dear community,
I am currently analysing a set of stranded paired-end RNA-seq data (human, 80 bp). Up till now, I only trimmed the adapter... -
How to add GFP sequence to mouse genome for mapping
Hi guys,
I was wandering what is the right way to add the sequence of GFP reporter to a mouse genom. Basically instead of "geneA" in... -
Question on reads mapping smallRNA-seq (100% feature coverage)
Hi all,
I have a fastq file containing reads from an Illumina NextSeq smallRNA sequencing, a fasta file representing the genome (it is composed... -
Mapping using STAR and Bowtie
Hi all,
I want to perform an alignment of short reads against a reference genome (human genome from Ensembl). For that I've used STAR,... -
Incosistent number of paired end reads (BAM file generated by STAR using RSEM)
I have used RSEM to quantify paired-end RNA-Seq data. The alignment was done
using STAR which was called internally by RSEM, using a reference... -
Remapping reads
hello!
Currently I am working with a large set of STAR mapped reads, the output is in sam format. I would like to remap, but was wondering if its... -
Help in output only the alignments identical to the reference
Hello everyone,
I have a SAM file resulting from a STAR alignment, containing reads aligned to a reference of smallRNA sequences (I created the... -
RNA- Seq annotate only multimapping reads.
Hi,
I am working with 50bp single end reads to perform differential gene expression analysis. I use STAR to map the reads and I figured...
