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122,200 results • Page 655 of 2444
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4
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1.6k
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ChIP-seq correlation with CNS
cnv segmented chip
4.5 years ago by buffealo ▴ 130
2
votes
1
reply
917
views
get snps from specific individuals from VCF
vcftools VCF GATK bcftools
4.5 years ago by puddingmeow516 ▴ 10
0
votes
1
reply
842
views
Differential Expression Analysis for miRNA
limma Differential-gene-Expression miRNA
updated 19 months ago by 45k • written 4.5 years ago by • 0
2
votes
1
reply
1.6k
views
Find and replace the RNAME field in BAM/SAM file
samtools bam loop sed sam
updated 4.5 years ago by 154k • written 4.5 years ago by ▴ 210
0
votes
0
replies
919
views
HOMER average conservation information
homermotif peaks chip-seq annotation motifanalysis
4.5 years ago by buffealo ▴ 130
0
votes
2
replies
3.9k
views
how to generate setID file?
annovar
updated 4.5 years ago by • 0 • written 10.7 years ago by • 0
7
votes
4
replies
4.5k
views
Trimming on Nanopore Data
Trimming NanoporeSequencing Rna-Seq
updated 4.5 years ago by 8.1k • written 4.5 years ago by ▴ 40
0
votes
1
reply
1.3k
views
ChIP QC
QC ChIP
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 170
2
votes
2
replies
1.4k
views
Correlation genes in multiple scRNA-seq
scRNA-seq R
4.5 years ago by Wede ▴ 20
6
votes
4
replies
2.9k
views
Forum: Detailed Textbooks for bioinformatics and computational biology
biomedical Computational genomics
updated 4.4 years ago by 45k • written 4.5 years ago by ▴ 10
4
votes
9
replies
3.2k
views
Truncate unevenly covered BAM file at certain coverage
samtools bam
4.5 years ago by predeus ★ 2.1k
1
vote
4
replies
1.3k
views
Simple metric to remove outliers from MSA
Outlier MSA Aligment
updated 4.5 years ago by ★ 30k • written 4.5 years ago by • 0
0
votes
0
replies
1.5k
views
GATK GetpileupSummaries common germline resource
commongermlineresource getpileupsummaries af
updated 4.5 years ago by 45k • written 4.5 years ago by • 0
6
votes
3
replies
2.4k
views
Blast to bed for subjects
conversion bed bedtools blast
4.5 years ago by QLFblaireau ▴ 30
1
vote
3
replies
1.9k
views
Nanopore Preprocessing Step
Preprocessing NanoporeSequencing Rna-Seq
4.5 years ago by santos48 ▴ 40
0
votes
0
replies
703
views
Job: Now Hiring - Nanopore Production Specialist
DNA sequencing genomics
updated 4.4 years ago by 45k • written 4.5 years ago by ▴ 30
6
votes
11
replies
2.6k
views
Problem with snakefile.
snakemake snakefile
updated 4.5 years ago by 21k • written 4.5 years ago by ▴ 10
3
votes
8
replies
7.8k
views
6 follow
Merging FASTQ files with Cellranger
Cellranger Merging
updated 2.6 years ago by • 0 • written 4.5 years ago by ▴ 70
0
votes
0
replies
812
views
R package for AMOVA of mitochondrial haplotype frequencies
frequency haplotype AMOVA r mtDNA
4.5 years ago by irieljoerin ▴ 40
1
vote
1
reply
1.1k
views
Any idea about CYTOF and scRNAseq
CYTOF
updated 4.5 years ago by ▴ 270 • written 4.5 years ago by ★ 4.4k
0
votes
2
replies
1.8k
views
P value or P adj value
R studio
4.5 years ago by Claire • 0
0
votes
7
replies
1.7k
views
p.adj in associate function can't be changed to p.value
R microbiome
updated 4.5 years ago by 45k • written 4.5 years ago by • 0
0
votes
0
replies
721
views
Operon Mapping
SLING operon Multigeneblast
4.5 years ago by sharmatina189059 ▴ 110
3
votes
21
replies
6.1k
views
Blast a sequence with N's
sequence blastn Short
updated 4.5 years ago by 16k • written 4.5 years ago by ▴ 20
0
votes
0
replies
809
views
Job: Research Data Scientist, Computational Biology of Aging
BioAge JobPosting ComputationalBiology
4.5 years ago by jamie • 0
2
votes
4
replies
5.5k
views
Is there a manual to understand STAR output files?
STAR RNAseq alignment
4.5 years ago by ev97 ▴ 40
2
votes
4
replies
5.0k
views
Y Chromosome Heterozygotes?
variant-calling chromosome
updated 4.5 years ago by ★ 2.6k • written 12.2 years ago by • 0
2
votes
4
replies
7.3k
views
TRINITY tool installation help
next-gen Assembly software sequencing error
updated 4.5 years ago by 45k • written 10.0 years ago by ▴ 40
16
votes
8
replies
7.2k
views
fixed effect vs random effects RNA analysis
variancePartition voom LIMMA DE RNA
updated 4.5 years ago by ★ 1.8k • written 4.5 years ago by ▴ 20
4
votes
10
replies
4.4k
views
HELP! extract variants for individual sample IDs in a multisample VCF
Commands
updated 4.4 years ago by 45k • written 4.5 years ago by ▴ 20
0
votes
0
replies
1.4k
views
Issue renaming clusters in Python
seurat python
4.5 years ago by V ▴ 420
8
votes
6
replies
5.2k
views
7 follow
solving heap size problem in linux
RNA-Seq
updated 4.5 years ago by • 0 • written 6.7 years ago by ▴ 30
6
votes
6
replies
5.2k
views
What is a FASTA format file ?
Sequence NCBI FASTA Genome
updated 2.7 years ago by 45k • written 4.5 years ago by ▴ 30
5
votes
6
replies
3.3k
views
How can I join multiple columns from different datasets together in R?
r
4.5 years ago by valentinavan ▴ 50
1
vote
3
replies
2.3k
views
GATK ApplyVQSR filtering doesnt work
gatk variant calling germline
4.5 years ago by nhaus ▴ 420
2
votes
3
replies
3.0k
views
Where can I find the rRNA sequence of E.coli?
rRNA E.coli
4.5 years ago by Inayat • 0
0
votes
0
replies
880
views
Generating random bed with interval lenghts following exponential distribution
length bed distribution intervals random
4.5 years ago by Bertalan_Takacs ▴ 140
1
vote
1
reply
3.2k
views
Filter a VCF by genotype posterior probabilities (GP) obtained when imputing with beagle
genotypes imputation vcf bcftools beagle
updated 4.5 years ago by 2.9k • written 4.5 years ago by ▴ 10
3
votes
2
replies
3.2k
views
Bedtools intersect PE BAM reads
intersect BAM bedtools
4.5 years ago by maxrwjones ▴ 60
8
votes
6
replies
7.4k
views
Tool: chromoMap- R package for Interactive visualization and Annotation of chromosomes or regions of any living organism.
annotation R genome visualization
updated 2.5 years ago by 45k • written 6.6 years ago by ▴ 90
0
votes
0
replies
810
views
PRSice and time to event data
PRSice PRS Survival
4.5 years ago by Sharon.Johnatty • 0
0
votes
0
replies
764
views
NDEx database data download
ndex database pathway
4.5 years ago by Shicheng Guo ★ 9.6k
0
votes
2
replies
1.3k
views
TWAS analysis
TWAS predixscan
4.5 years ago by rheab1230 ▴ 150
1
vote
1
reply
1.7k
views
Best method to visualize metagenomic data besides krona?
metagenomics krona
updated 4.5 years ago by 3.9k • written 4.5 years ago by ▴ 260
2
votes
2
replies
1.2k
views
Do EGA RNAseq .bam files come with gtf/gff file corresponding to the genome assembly used?
gtf gff RNAseq bam EGA
updated 4.5 years ago by 154k • written 4.5 years ago by ▴ 10
4
votes
3
replies
1.6k
views
Where is the most up-to date TCGA clinic data?
TCGA
updated 4.5 years ago by ★ 1.3k • written 4.5 years ago by ▴ 50
5
votes
4
replies
4.1k
views
How do I properly visualize ATAC seq data on UCSC browser
peaks UCSC ATAC_seq
4.5 years ago by rb56 ▴ 30
13
votes
9
replies
10k
views
EnhancedVolcano: How to coloring custom gene points in volcano plot?
EnhancedVolcano
updated 4.5 years ago by ★ 90k • written 5.5 years ago by ▴ 70
2
votes
1
reply
1.8k
views
PLINK Clumping d-prime or r2?
GWAS PLINK
updated 4.5 years ago by ▴ 940 • written 4.5 years ago by ▴ 110
2
votes
3
replies
1.3k
views
extracting parts of vcf file
vcf plink
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 30
122,200 results • Page 655 of 2444
Recent Votes
Answer: Log2 transformation is well used, but is there a good paper that can be used as
Answer: Flatten a GTF
Answer: RNA-seq - Creating SAF from NCBI gff for Subread featureCounts - keep 'gene' or
Can EdgeR of DeSeq be used for Single-cell RNA-seq?
Answer: Getting the overlap between two GTF files
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
Converting GFF to GTF
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Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 10
thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 10
here the igv view. showing the histogram for all samples plus the reads for one: ![enter image description here][1] and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Arup Ghosh 3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by Pierre Lindenbaum 166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
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…
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