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News: The Biostar Handbook. A bioinformatics e-book for beginners.

tutorial news training handbook written 2.3 years ago by Istvan Albert ♦♦ 79k • updated 8 hours ago by Glory Basumata • 10

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The Biostar Handbook: A Beginner's Guide to Bioinformatics

handbook written 20 months ago by nusrat.bot • 0 • updated 20 months ago by genomax ♦ 64k

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News: The Gene Ontology Handbook (open access)

news training handbook go tutorial written 2.3 years ago by Christophe Dessimoz • 540

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C: Variant calling on matched primary and metastatic tumor without normal samples. by Nicolas Rosewick ♦ 7.4k
I would try both options and compare them. However for option 1) I would use primary as control a...
C: How to calculate Tumor Mutation Burden (TMB) for TCGA samples by Mike • 1.2k
Thanks Kevin and bruce.moran for your help
A: ClusterProfiler fails to find GO terms by Guangchuang Yu • 2.1k
``` > genes<-c("ENSG00000198886","ENSG00000198888","ENSG00000198763","ENSG00000198840","E...
C: how to get Z-score without normal samples as control group in nipt(Non-invasive by Nicolas Rosewick ♦ 7.4k
Maybe I do not understand your question but a z-score is defined as `z = (x - x̄ )/ s` where x̄ is...
C: DBI connect failed: orthomclLoadBlast by lieven.sterck ♦ 4.2k
are you sure you are using the correct credentials to access this remote SQL server? and set the ...
C: Outputting strain name on prokka annotation by jrj.healey ♦ 11k
You've clearly munged your fasta files if you actually read that error. You have a non-nucleotide...
C: DESeq2 model design by Devon Ryan ♦ 88k
They have no corresponding samples with which to compare, so it's unclear if any change is actual...
C: Run RepeatMasker problems by lieven.sterck ♦ 4.2k
Yes, that will likley be so, as that points the the repeatmasker binary (== the program itself) (...
C: Number of read with fastq file name by cpad0112 ♦ 11k
input fastq: $ cat test.fq @SEQ_ID GATTTGGGGTTCAAAGCAGTATCGATCAAATAGTAAATCCATTTGTTC...
A: Any Free Software Similar To Sequencher? by Antonio R. Franco • 4.0k
If you intention is to map long sequences (EST, contigs,..) to the genome, take a look to [GMAP][...
A: What is the right illumina universal adapter sequence for trimming paired-end re by bioExplorer ♦ 3.7k
The answer is cutadapt -a AGATCGGAAGAG -A AGATCGGAAGAG -o tr_R1.fastq -p tr_R2.fastq R1.fas...
A: Number of read with fastq file name by bioExplorer ♦ 3.7k
#!/bin/bash for i in `ls *.fq`; do file_name=$(basename -s .fq $i); printf "$file_n...

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