Bioinformatics

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First edit.
Awarded 1257 times.
how to do manual search on NCBI with biopython and add link to publication
Awarded 7 hours ago
Cells with zero expression of a given gene
Awarded 18 hours ago
open and read Fasta file (raw data)
Awarded yesterday
question to pick values based on conditions using a loop
Awarded 2 days ago
Is there a standard API for terminology services?
Awarded Feb 3 at 21:06
How to do pathway analysis after scanpy for single cell data after DE analysis?
Awarded Feb 3 at 18:03
Where/How can I download all proteins in the UniProt with signal peptide annotated?
Awarded Feb 2 at 1:18
How do I cut a genome into one specific region?
Awarded Feb 1 at 12:11
(post deleted or otherwise unavailable)
Awarded Feb 1 at 11:33
Differential gene expression: how do I correctly compare three groups to each other?
Awarded Jan 31 at 0:30
How to Recalculate Allele Frequency from a VCF File?
Awarded Jan 27 at 17:53
Mixcr batch processing
Awarded Jan 26 at 16:27
Is it possible to create SMILES representation out of DNA/RNA-Oligonucleotides (~50 nts)?
Awarded Jan 26 at 16:27
Creating a count table using R
Awarded Jan 25 at 21:47
Fix dash/empty ALT alleles for deletions in VCF
Awarded Jan 25 at 11:36
(post deleted or otherwise unavailable)
Awarded Jan 24 at 11:49
Publicly available control datasets
Awarded Jan 23 at 13:18
dealing with a list of VEP files
Awarded Jan 17 at 21:27
How to z-transform Fst and -log(p) values for genome wide selection scan?
Awarded Jan 17 at 19:21
cromwell fails to download url input file
Awarded Jan 13 at 4:11
Extract lines from a file based on a range of coordinates listed on a second file
Awarded Jan 11 at 15:02
What do you use the CLANS program for?
Awarded Jan 10 at 5:56
Drawing synteny using CIRCOS from progressive MAUVE alignment
Awarded Jan 9 at 6:49
Sanger sequencing annotation error
Awarded Jan 5 at 17:16
Should be RT-qPCR values standardized before PCA analysis?
Awarded Jan 3 at 17:33
Problems with BED format for ClinCNV
Awarded Jan 2 at 12:41
Unable to open .bam file in C++ using SeqAn due to 'seqan::UnknownExtensionError'
Awarded Dec 31, 2022 at 9:18
DESeq2 for large number of samples takes too much RAM
Awarded Dec 29, 2022 at 7:52
What is the correct method of identifying the interacting residues for specific molecular docking?
Awarded Dec 27, 2022 at 3:28
Using R `ggtree`, attach extra data next to the nodes on an illustrated tree/newick file
Awarded Dec 27, 2022 at 1:00
Availability of information on genes in Gnomad VCF data
Awarded Dec 26, 2022 at 7:57
(post deleted or otherwise unavailable)
Awarded Dec 24, 2022 at 4:06
VCF: false insertions?
Awarded Dec 23, 2022 at 15:09
How does one account for both single end and paired end reads as input in a Nextflow pipeline?
Awarded Dec 22, 2022 at 21:04
How can I use sequences with different lengths in arlequin?
Awarded Dec 19, 2022 at 10:42
Need to convert .bed to .vcf. Can the reference build (and necessary .fasta) be determined for a .bed file?
Awarded Dec 16, 2022 at 21:35
SNPs location out side the gene
Awarded Dec 14, 2022 at 12:55
Grep peculiar pattern inside a file
Awarded Dec 12, 2022 at 14:16
File I/O error using nglview.show_biopython(structure)
Awarded Dec 12, 2022 at 8:22
CNVKit does not output all the accessible regions in the targets bed file
Awarded Dec 8, 2022 at 12:31
Manually order the set fails in UpsetR
Awarded Dec 8, 2022 at 0:32
Identify SNP from genetic position
Awarded Dec 7, 2022 at 22:50
Can I run dotPlotly from Rstudio?
Awarded Dec 6, 2022 at 11:05
Visualise multiple disappearing pdb files in Pymol
Awarded Dec 5, 2022 at 23:20
(post deleted or otherwise unavailable)
Awarded Dec 3, 2022 at 23:25
Can I perform Expression Analysis on this 10x dataset?
Awarded Nov 25, 2022 at 3:49
How to wget a gff from NCBI database?
Awarded Nov 22, 2022 at 9:26
Bcftools 1.16 able to add F_MISSING tag?
Awarded Nov 21, 2022 at 14:25
Implement a WDL workflow for a docker container I built
Awarded Nov 18, 2022 at 22:07
How to resolve Error in fix.by(by.x, x) : 'by' must specify a uniquely valid column while using merge function in R
Awarded Nov 17, 2022 at 18:47
(post deleted or otherwise unavailable)
Awarded Nov 14, 2022 at 18:58
motif searching in a multi-fasta file
Awarded Nov 14, 2022 at 9:41
Is current AI able to generate RNA sequences of viruses? [closed]
Awarded Nov 11, 2022 at 15:02
eQTL data extraction from database JSON file
Awarded Nov 9, 2022 at 20:21
Compare and Reorganize Fasta Headers Python
Awarded Nov 9, 2022 at 16:35
What are the columns in bedtools coverage output hist file?
Awarded Nov 9, 2022 at 11:03
eQTL data extraction from database JSON file
Awarded Nov 9, 2022 at 3:08
Filter with bcftools
Awarded Nov 7, 2022 at 14:51
Only the first file Pair is processed from Channel.fromFilePairs()
Awarded Nov 6, 2022 at 15:04
Can I discard missing alleles?
Awarded Nov 5, 2022 at 16:41
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