Bioinformatics

Famous Question

 Famous Question
Question with 10,000 views. This badge can be awarded multiple times.
Awarded 44 times.
Understanding DESeq2 design, contrast and results
Awarded Dec 4 at 16:10
What is the index fastq file (sample_I*.fastq.gz) generated when demultiplexing Illumina paired-end runs?
Awarded Dec 4 at 3:16
Percentage of each cluster in Seurat
Awarded Nov 10 at 19:02
curl: (22) The requested URL returned error: 400 Bad Request when using entrez direct
Awarded Oct 15 at 17:35
Error in seaborn plot " Horizontal orientation requires numeric `x` variable"
Awarded Sep 23 at 0:55
How to subset a BAM by a list of QNAMEs?
Awarded Sep 11 at 19:21
How to concatenate "by chromosome"-VCFs?
Awarded Aug 16 at 21:51
How can I extract normalized read count values from DESeq2 results?
Awarded Jul 14 at 3:08
FeaturePlot from Seurat: change its title
Awarded Jun 22 at 23:57
How to compute RPKM in R?
Awarded May 19 at 11:48
What reasons are there to choose Illumina if PacBio provides longer and better reads?
Awarded May 2 at 10:07
Changing active.ident in Seurat
Awarded Feb 14 at 3:16
Converting Ensembl Gene IDs to Entrez Gene IDs through biomart
Awarded Feb 11 at 9:18
Converting a BAM file into VCF
Awarded Jan 18 at 20:40
how to merge more than two sample in Seurat?
Awarded Jan 12 at 22:56
Downloading a reference Genome for Bowtie2
Awarded Nov 23, 2022 at 6:55
How to use Python to count k-mers?
Awarded Sep 29, 2022 at 22:34
Meaning of BWA-MEM MAPQ scores
Awarded Sep 22, 2022 at 9:21
Download multiple SRA files
Awarded Sep 8, 2022 at 3:57
Error in as.vector(x) : no method for coercing this S4 class to a vector
Awarded Aug 29, 2022 at 4:52
Obtaining uniquely mapped reads from BWA mem alignment
Awarded Aug 17, 2022 at 23:01
How to merge .fastq.qz files into a single .fastq.gz with their same id without losing any content in parallel
Awarded Jul 15, 2022 at 15:36
How to subset a VCF by chromosome and keep the header?
Awarded Jul 1, 2022 at 8:19
Manually define clusters in Seurat and determine marker genes
Awarded May 12, 2022 at 6:27
How to calculate p-values for fold changes?
Awarded May 5, 2022 at 14:18
What Ensembl genome version should I use for alignments? (e.g. toplevel.fa vs. primary_assembly.fa)
Awarded Mar 11, 2022 at 19:30
How to download FASTA sequences from NCBI using the terminal?
Awarded Feb 22, 2022 at 16:12
How to convert FASTA to BED
Awarded Feb 21, 2022 at 14:32
Feature annotation: RefSeq vs Ensembl vs Gencode, what's the difference?
Awarded Feb 15, 2022 at 7:50
How to obtain .bed file with coordinates of all genes
Awarded Jan 21, 2022 at 19:10
How can I downsample a BAM file while keeping both reads in pairs?
Awarded Nov 17, 2021 at 0:50
Resolution parameter in Seurat's FindClusters function for larger cell numbers
Awarded Nov 5, 2021 at 20:16
Fast way to count number of reads and number of bases in a fastq file?
Awarded Jun 16, 2021 at 16:55
Converting VCF file to PLINK bed/bim/fam files
Awarded Apr 7, 2021 at 12:40
How to subset samples from a VCF file?
Awarded Feb 19, 2021 at 13:02
Uppercase vs lowercase letters in reference genome
Awarded Jan 29, 2021 at 14:04
Remove/delete sequences by ID from multifasta
Awarded Jan 21, 2021 at 16:05
changing color key range to specified range in heatmap.2 function
Awarded Dec 15, 2020 at 1:22
What is the difference between a transcriptome and a genome? [closed]
Awarded Oct 23, 2020 at 19:36
Converting Gene Symbol to Ensembl ID in R
Awarded Jul 3, 2020 at 4:04
Difference between CPM and TPM and which one for downstream analysis?
Awarded Apr 19, 2020 at 19:47
How to scale the size of heat map and row names font size?
Awarded Feb 13, 2020 at 4:00
Why does the SARS-Cov2 coronavirus genome end in aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa (33 a's)?
Awarded Jan 26, 2020 at 2:55
What is the difference between FASTA, FASTQ, and SAM file formats?
Awarded Nov 13, 2018 at 1:40

Your privacy

By clicking “Accept all cookies”, you agree Stack Exchange can store cookies on your device and disclose information in accordance with our Cookie Policy.