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4
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2.6k
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How to view if a gene is protein-coding?
genetics protein-coding genes
updated 4.4 years ago by ★ 1.8k • written 4.4 years ago by ▴ 20
2
votes
6
replies
2.2k
views
IMPUTE2 minimal number of SNPs per chunk
impute gwas
updated 4.4 years ago by 4.8k • written 4.4 years ago by ▴ 420
0
votes
1
reply
990
views
IMPUTE2 limit to only one population of 1000G Reference
GWAS impute 1000g
updated 4.4 years ago by 4.8k • written 4.4 years ago by ▴ 420
1
vote
3
replies
1.5k
views
SortSam Error after BWA alignment
alignment mappingquality picard sortsam bwa
4.3 years ago by loy_loy ▴ 10
2
votes
12
replies
8.3k
views
Confused with 2 SRA runs for one sample
runs Illumina RNASeq sra
4.4 years ago by ConfusedSheep ▴ 10
0
votes
2
replies
1.6k
views
Unicycler error not enough memory available
assembly unicycler memory
updated 4.4 years ago by ★ 30k • written 4.4 years ago by ▴ 180
0
votes
3
replies
4.7k
views
PubChem CID in ChEMBL
ChEMBL PubChem
updated 4.4 years ago by • 0 • written 6.6 years ago by • 0
0
votes
2
replies
987
views
DESeq2 no replicates analysis with a design value of ~1 generates only positive log2foldchange
DESeq2 Log2FoldChange
4.4 years ago by BIN • 0
0
votes
6
replies
1.8k
views
extracting only one sex from gnomad genome v.3.1 file
gnomad
4.4 years ago by storm1907 ▴ 30
4
votes
0
replies
947
views
Herald: The Biostar Herald for Friday, July 02, 2021
herald
updated 4.4 years ago by 20 • written 4.4 years ago by 3.7k
1
vote
7
replies
16k
views
hisat2-align exited with value 1
alignment RNA-Seq rna-seq
updated 4.4 years ago by • 0 • written 6.7 years ago by • 0
1
vote
4
replies
1.3k
views
Pseudocode for gapped BLAST seed extension
Pseudocode smith-waterman seed extend BLAST
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 10
6
votes
4
replies
1.6k
views
RNA-seq normalisation
normalisation RNAseq
4.4 years ago by raavi21198 ▴ 20
0
votes
0
replies
534
views
Calculate of Total Hip BMD
Hip BMD
4.4 years ago by Yong ▴ 10
1
vote
1
reply
1.0k
views
Identify the potential TF involved in the regulation of DEGs
Transcription factors gene list R
updated 4.4 years ago by ★ 2.2k • written 4.4 years ago by ▴ 30
0
votes
0
replies
778
views
Job: Postdoctoral Associate in statistical geneticist . Nantes/France
france nantes postdoc
4.4 years ago by Pierre Lindenbaum 166k
0
votes
1
reply
1.1k
views
Rarefy metagenomic adatasets for taxonomic profiling using MetaPhlAn3
metagenomics Rarefy MetaPhaln3 Genomics
updated 4.4 years ago by 3.9k • written 4.4 years ago by • 0
1
vote
3
replies
1.4k
views
Calculates the percent sequenceCalculates the percent sequence identity for a pairwise sequence alignment
pairwise sequence alignment identity
updated 3.9 years ago by 23k • written 4.4 years ago by ▴ 40
0
votes
1
reply
1.0k
views
High-throughput sequence variant analysis: Using BAM or VCF files?
ICGC VCF BAM High-throughput
updated 4.4 years ago by 90k • written 4.4 years ago by ▴ 110
2
votes
4
replies
1.9k
views
Subsetting fastq file based on reads starting with a specific pattern
fastq subset
4.4 years ago by biomon ▴ 60
2
votes
5
replies
3.2k
views
Visualizing the gene network obtained by WGCNA
WGCNA weighted network visualizing
4.4 years ago by seta ★ 1.9k
4
votes
7
replies
4.4k
views
How to move the files from sub folder and sub-sub folders into one other folder?
bash
updated 2.7 years ago by 45k • written 4.4 years ago by ▴ 80
0
votes
0
replies
1.0k
views
Where to find GATK4 ACNV
segmentation CNV ABSOLUTE GATK
4.4 years ago by noona • 0
3
votes
5
replies
1.8k
views
Integration of two TCGA datasets
r RNA-Seq tcga survival
updated 4.4 years ago by ★ 90k • written 4.4 years ago by ▴ 90
3
votes
4
replies
2.4k
views
Generating Positional List from VCF
guidance
updated 2.1 years ago by ▴ 340 • written 4.4 years ago by ▴ 60
3
votes
6
replies
2.4k
views
KentUtils Installation Problem
kenutils gff3ToGenePred gff3 UCSC gff
4.4 years ago by mglasena ▴ 40
3
votes
3
replies
2.7k
views
DESeq2 saying that dimensions of count matrix and metadata don't agree, but they do agree
expression R differential
4.4 years ago by hippo ▴ 10
7
votes
8
replies
7.1k
views
Aligning PacBio hifiasm CCS to reference genome using pbmm2
assembly pbmm2 pacbio hifiasm
updated 3.6 years ago by ▴ 410 • written 4.5 years ago by ▴ 10
4
votes
6
replies
2.5k
views
How to find out TFBS motifs within 5'-UTR sequences
5prime-UTR TFBSmotifs
updated 16 months ago by 45k • written 4.4 years ago by ▴ 10
1
vote
1
reply
883
views
Ways to mapping a transcriptome against a single gene
annotation RNAseq
updated 4.4 years ago by ★ 7.8k • written 4.4 years ago by ▴ 20
3
votes
3
replies
6.3k
views
How to plot phylogenetic tree using R packages
ape phylogenetic ggtree
4.4 years ago by Kumar ▴ 170
1
vote
3
replies
1.5k
views
Identify unique genes and protein families from eukaryotic genome
Phylogenetic SNP Unique tree gene
updated 4.4 years ago by ★ 2.9k • written 4.4 years ago by ▴ 20
11
votes
13
replies
3.0k
views
6 follow
Bioinformatics
tag1 tag2
updated 4.4 years ago by 22k • written 4.4 years ago by ▴ 30
0
votes
0
replies
716
views
How to resolve Basic4cseq package printwigfile function error
NGS R 4Cseq DNAseq
4.4 years ago by koushikayaluri ▴ 70
0
votes
0
replies
858
views
Small sample sizes in dapc, adegenet.
find.clusters clusters adegenet populations dapc
4.4 years ago by Ismaelrymy • 0
2
votes
1
reply
838
views
Forum: Is there a way to look into funding proposals of published papers?
funding
updated 4.4 years ago by ★ 30k • written 4.4 years ago by ▴ 30
0
votes
1
reply
1.3k
views
minimap2 aligning sequencing reads to barcodes
demultiplex nanopore sequencing minimap2
updated 4.4 years ago by 154k • written 4.4 years ago by • 0
1
vote
1
reply
1.1k
views
Multiple identical mutations in SnpEff result: ex1.genes.txt
mutation SnpEff
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
1
vote
1
reply
1.4k
views
Deseq DEG genes to Cytoscape for network visualization?
deseq cytoscape deg
updated 4.4 years ago by ▴ 140 • written 4.4 years ago by ▴ 10
0
votes
2
replies
1.1k
views
Script for cascade molecular dynamics
cascading script moleculardynamics
4.4 years ago by Samilla • 0
1
vote
2
replies
1.6k
views
filter VCF by HGVS - indel normalisation
VCF VEP
updated 4.4 years ago by 24k • written 4.4 years ago by • 0
2
votes
4
replies
1.8k
views
BLAST Database error: No alias or index file found for nucleotide database
blast blastx
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 70
1
vote
1
reply
1.5k
views
Job: Bioinformatics Scientist in the department of Research Technology at Tufts University
scRNASeq Python R genomics
updated 4.4 years ago by ▴ 280 • written 4.4 years ago by • 0
2
votes
2
replies
3.8k
views
How to set a multiqc outpath
fastqc multiqc
4.4 years ago by michael.flower.14 ▴ 210
0
votes
0
replies
1.5k
views
logistic Principal Component Analysis for binary data (gene presence absence between 3 states)
gene logistic PCA binary
4.4 years ago by Jonathan Yoou ▴ 70
1
vote
6
replies
2.0k
views
How to use DELLY on Galaxy
DELLY Galaxy
updated 4.4 years ago by 4.2k • written 4.4 years ago by ▴ 10
0
votes
0
replies
774
views
Visualising SeqRecords with compound locations
genbank snapgene benchling biopython
4.4 years ago by timothy.kirkwood ▴ 140
0
votes
0
replies
759
views
how to get a consensus sequence for each sample in a vcf file using a reference sequence?
vcf fasta sequence
updated 2.5 years ago by 45k • written 4.4 years ago by • 0
0
votes
0
replies
948
views
maxT permutation in plink
plink gwas
4.4 years ago by nhaus ▴ 420
2
votes
1
reply
1.4k
views
Using OrthoMCL on command line
orthomcl
updated 4.4 years ago by 15k • written 4.4 years ago by ▴ 40
122,200 results • Page 627 of 2444
Recent Votes
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Comment: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Midpoint rooting IQTREE newick file moves node support around
Answer: Subsetting before QC in Spatial Transcriptomics
Answer: Feature Counts vs Salmon quantification
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Recent Replies
Comment: Can i use orthofinder for small protein datasets and not full proteome? by alexandrakortsi • 0
By sequence. Thank you for your response!
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding by xinguok794 ▴ 10
Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
Comment: Subsetting before QC in Spatial Transcriptomics by Kent ▴ 30
Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
Comment: Midpoint rooting IQTREE newick file moves node support around by Luca Arbore ▴ 10
Thank you very much Kevin, it worked!
Comment: ID unifiying across different datasets by GenoMax 154k
In this case the entry notes that this is likely the product of a pseudogene: https://www.uniprot.org/uniprotkb/Q5VTE0/entry and existence …
Comment: Comparison of different RNAseq data sets by DrSmad ▴ 10
Each lab contributes both control and LPS. Example, for cell line A_lab1 did and analysis on control and LPS-6h. Cell line B_lab2 did contr…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
sorry, why some gene names are often lacking though the Uniprot ID is still valid (using biomart)?
Comment: snpEff: Unsupported structural variant types by shpak.max ▴ 70
Unfortunately, while it ran without a problem initially, when I checked the run screen today, I saw the following error message (and unlike…
Comment: ID unifiying across different datasets by GenoMax 154k
You can use the [**ID mapping tool**][1] from UniProt site (third ID did not map from the list above): From To P68104 ENSG0000015…
Answer: The geo samples is not having sentrix id and sentrix position. But this informat by yura.grabovska ▴ 890
Crosspost from related question: https://www.biostars.org/p/9616466/#9616534 ``` ##Using R, illuminaio from Bioconductor library(…
Answer: Finding Sentrix ID in HM450K arrays by yura.grabovska ▴ 890
``` ##Using R, illuminaio from Bioconductor library(illuminaio) temp.idat <- readIDAT(file = "200379120087_R02C02_Grn.idat") tem…
Comment: Can i use orthofinder for small protein datasets and not full proteome? by michael.ante ★ 4.0k
Do you want to compare them by sequence or by function? For the later, you can use e.g. InterProScan, KoFamScan.
Answer: Can i use orthofinder for small protein datasets and not full proteome? by dthorbur ★ 3.2k
If you're just using the tool for clustering purposes, I think OrthoFinder might be a little clunky and would recommend using something lik…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
Thank you; The problem is let's say in the protein ID column I see `Q5VTE0;P68104;Q05639` here I am sure I should get which `ENSG` for eac…
Comment: How to improving 2-Nucleotide RNA-seq Mapping Accuracy by 2411110159 • 0
Since we do not have real data yet, I tried to simulate this using strand-specific RNA bisulfite-seq reads (C to T). Read1 corresponds to t…
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