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Comment: Problem with Seurat package in PercentageFeatureSet function
A: Trimmomatic: What is the difference between paired and unpaired output files in
Trimmomatic: What is the difference between paired and unpaired output files in paired-end mode
Comment: Genome Assembly task + Protein Translation, assignment advice on a question
Answer: Tissue-specific DEG analysis with DEseq2
Comment: Tassel 5 GBS: Is there something wrong with my fastqs?
Answer: what is another word for a BLAST "hit"?
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Recent Replies
Comment: BioLabDonkey - new Mac program for molecular biologists
by
vytarasov
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Update of BioLabDonkey - Version 5.6 - In silico PCR function is added.
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
Pierre Lindenbaum
161k
cross posted: https://stackoverflow.com/questions/78462732/ > Please mind that posting the same question to multiple sites can be perceive…
Comment: java.nio.bufferunderflowexception haplotypecaller error for bqsr reads
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Pierre Lindenbaum
161k
command is missing, version is missing.
Answer: Failed to open VCF file
by
Pierre Lindenbaum
161k
> Error: Failed to open vcf file Fixing: No such file or directory one of your file is missing, obviously. Check files exist using `[…
Comment: Align paired and unpaired reads simultaneously using Bowtie2?
by
Ruqaiya
• 0
I have forward reads that didn't require any trimming except for adapter sequence. but the reverse read file required trimming so i trimmed…
Comment: Trimmomatic: What is the difference between paired and unpaired output files in
by
Ruqaiya
• 0
can we not mention unpaired ? i have a reverse read file that needs a lot of trimming but forward file is usable. I don't understand how to…
Comment: Genome Assembly task + Protein Translation, assignment advice on a question
by
rackbersingh
• 0
It is an indeed an old assignment question, I am doing revision and practicing answering questions for an upcoming test and just wanted to …
Comment: How are score_weights calculated in this code?
by
carolofharvest
▴ 40
I've found this code [in this site :][1] . It doesn't seem like they've shared any additional information about this in the previous line…
Comment: Correlation Analysis
by
Researcher
▴ 30
Thank you so much. I ran based on the above code and found that all gene columns have the same values, which you obtain as the average corr…
Answer: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
Pierre Lindenbaum
161k
use bcftools merge with --force-samples and then use jvarkit https://jvarkit.readthedocs.io/en/latest/VcfFilterJdk/ to replace the no-call …
Answer: In IGV is this a heterogeneous mutation or false call?
by
swbarnes2
14k
Since all the reads that show the alternate allele have to be clipped to align there, I'd say those reads are misaligned. I would say that…
Comment: Tassel 5 GBS: Is there something wrong with my fastqs?
by
GenoMax
142k
> Here's a few lines from the head of the raw fastq If your files are actually compressed (as their names suggest) then you should not be …
Comment: Tassel 5 GBS: Is there something wrong with my fastqs?
by
GenoMax
142k
If you added the `\` before the `+` then there is no need for it. It makes it appear that the sequences are not in proper fastq format. Ple…
Comment: Tassel 5 GBS: Is there something wrong with my fastqs?
by
Mensur Dlakic
★ 27k
This seems to be the same unanswered question as before, except that its description is split over two threads. You are now forcing us to r…
Answer: what is another word for a BLAST "hit"?
by
dec986
▴ 380
I'll probably go with "matches" even though it doesn't sound as good as just "hit"
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