Limit : all time
all time today this week this month this year
121,804 results • Page 592 of 2437
Sort: Rank
Rank Views Votes Replies
4
votes
7
replies
2.8k
views
Inferring CNVs from BAM files with SAMTools depth
samtools bam wes wgs cnv
updated 4.0 years ago by ★ 3.0k • written 4.0 years ago by ▴ 30
1
vote
1
reply
963
views
Base recalibration -Java run time error and no sequence dictionary
base GATK NGS recalibration
updated 4.0 years ago by ▴ 840 • written 4.0 years ago by ▴ 70
0
votes
1
reply
885
views
EQTL analysis
sQTL eQTL and
updated 4.0 years ago by ★ 3.3k • written 4.0 years ago by ▴ 50
0
votes
1
reply
839
views
Manhattan Plot in R with 100 non-numeric contigs and chromosomes
contigs chromosomes R Manhattan non-numeric
updated 4.0 years ago by 12k • written 4.0 years ago by ▴ 140
1
vote
2
replies
3.2k
views
Filter on Allele Balance using BCFTools
bcftools allele filter balance
updated 3.8 years ago by ★ 9.6k • written 4.0 years ago by ▴ 50
6
votes
9
replies
3.0k
views
Identification of transcription factors from a list of DEGs
DEGs TFs
4.0 years ago by navamikrishna99 ▴ 10
1
vote
0
replies
1.1k
views
Job: Bioinformatician — Biological data and network analysis
network-analysis Biological-data
updated 2.7 years ago by 45k • written 4.0 years ago by ▴ 30
0
votes
1
reply
935
views
how to find interference residue
protein
updated 4.0 years ago by ★ 29k • written 4.0 years ago by ▴ 920
0
votes
0
replies
633
views
Error in reading the annotation files
PyRadiomics Python
4.0 years ago by mxz707 • 0
3
votes
14
replies
4.3k
views
STAR split reads into two strands
rnachip stranded split STAR
4.0 years ago by Alexander • 0
2
votes
7
replies
2.5k
views
fastq file format
fastq NGS
4.0 years ago by Vladimir Leshuk ▴ 50
2
votes
2
replies
1.5k
views
Finding sequence family specific primers using DECIPHER
DECIPHER PCR primer
4.0 years ago by Marcel • 0
0
votes
0
replies
897
views
Best approach to finding correlation between two genes from MAGIC imputed single-cell RNA-seq data
genes MAGIC single-cell corrolation Seurat
4.0 years ago by Stevens ▴ 30
0
votes
5
replies
2.4k
views
How to convert mapping bam file to fastq without loseing the mapping information
bedtools bamtofastq samtools
updated 4.1 years ago by 153k • written 4.1 years ago by • 0
0
votes
0
replies
864
views
ICA - Reconstruction Errors
ICA Omics ML
updated 2.5 years ago by 45k • written 4.0 years ago by • 0
0
votes
3
replies
1.4k
views
Assessing how similar/ different of activated pathways between multiple groups of samples
pathway correlation test hypothesis
updated 4.0 years ago by 4.8k • written 4.0 years ago by ▴ 40
1
vote
2
replies
1.9k
views
Variant Calling Heterozygous Reference Alleles
alignment vcf gatk variant SNP calling
updated 4.0 years ago by 4.8k • written 4.1 years ago by ▴ 10
0
votes
0
replies
915
views
BEDPE file for ENCODE 3D chromatin structure data
BEDPE
4.0 years ago by arsala521 ▴ 60
3
votes
1
reply
6.6k
views
how do I add a title to an Upset plots
Upset plots R
updated 4.0 years ago by 11k • written 4.0 years ago by ▴ 60
0
votes
1
reply
1.4k
views
News: Databricks Runtime for Genomics (Deprecated)
Runtime Databricks Genomics
updated 4.0 years ago by 153k • written 4.0 years ago by ★ 9.6k
5
votes
12
replies
6.0k
views
weird MAplot or volcano plot of DESeq2 diff result
RNA-seq DESeq2
4.0 years ago by shangguandong1996 ▴ 30
1
vote
6
replies
1.7k
views
extraction of last 400 nucleotide from fastq file using python
Python fastq
updated 4.0 years ago by 45k • written 4.0 years ago by ▴ 80
2
votes
4
replies
1.5k
views
How to remove reads mapped to both plasmid and chromosome from the .sam file?
SAM-file NGS small-RNA
3.0 years ago by Vasiliy Krestov ▴ 30
1
vote
2
replies
1.6k
views
MCPcounter LibreSSL SSL_connect: SSL_ERROR_SYSCALL in connection to raw.githubusercontent.com:443
MCPcounter
4.0 years ago by Binghong ▴ 20
3
votes
2
replies
1.4k
views
problem with Trinity command run in denovo transcriptome assembly
analysis trinity transcriptome denovo
4.0 years ago by Aliviya • 0
1
vote
6
replies
2.1k
views
HISAT2: Question regarding providing file path to indexed genome folder
hisat2 alignment indexed
updated 4.0 years ago by 89k • written 4.0 years ago by ▴ 30
0
votes
1
reply
910
views
Metawrap pipeline doesn't detect samples
metawrap
4.0 years ago by arshad1292 ▴ 110
1
vote
2
replies
1.0k
views
Spliiting the bam files into separate samples ,tophat2
plant_sequence fraser rna splicing tophat2 data sequencing
4.0 years ago by Dixi • 0
0
votes
5
replies
2.7k
views
How to adjust p value after Wilcoxon rank sum test?
p-value TADs statistics Hi-C
updated 4.0 years ago by 56k • written 4.1 years ago by • 0
0
votes
0
replies
662
views
ProcessMethylation450Data function of TCGA-Assembler causing subscript out of bound error
of ProcessMethylation450Data out subscript bounds
4.1 years ago by Sheetal • 0
1
vote
3
replies
1.6k
views
smartPCA: problem with .evec file
smartpca
updated 2.4 years ago by 45k • written 4.1 years ago by ▴ 20
1
vote
3
replies
3.3k
views
zsh: exec format error: bigWigToWig
bigwig wig bed
updated 4.1 years ago by 153k • written 4.1 years ago by • 0
1
vote
0
replies
1.8k
views
Job: Genomics Data Scientist
Data Genomics Scientist
4.1 years ago by BerkeleyLab ▴ 70
0
votes
0
replies
1.0k
views
Job: Staff Data Scientist
date Scientist
4.1 years ago by BerkeleyLab ▴ 70
7
votes
6
replies
4.4k
views
Variant filtration software
exome
updated 4.0 years ago by 3.3k • written 4.8 years ago by ▴ 100
6
votes
4
replies
2.5k
views
Why do I get a big log fold change but small mean change in b value when plotting differential methylation?
differential volcano methylation
updated 4.1 years ago by ★ 8.3k • written 4.1 years ago by • 0
16
votes
5
replies
2.4k
views
Flipping a DNA sequence (not reverse complementing) using command line/samtools?
contigs scaffolds bionano Sequencing
updated 4.1 years ago by 153k • written 4.1 years ago by ▴ 80
1
vote
5
replies
2.5k
views
same padj for all the genes after DEseq analysis
NGS DEGs DESeq2 RNA-seq padj
updated 4.0 years ago by 9.0k • written 4.1 years ago by ▴ 30
1
vote
9
replies
3.2k
views
How to consider batch effect and multiple variable to identify differential gene expressions for a given Phenotype in DESeq2
DESeq2
4.0 years ago by pierre • 0
1
vote
1
reply
1.2k
views
Parsing snp result
SNP
updated 4.1 years ago by 45k • written 4.3 years ago by ▴ 20
5
votes
3
replies
1.5k
views
My bioinformatics story
QuantSeq DE EdgeR
updated 4.0 years ago by 45k • written 4.1 years ago by ▴ 60
1
vote
2
replies
1.2k
views
R script for offspring GO terms
multiple script terms GO
4.0 years ago by margot.27.muller ▴ 30
0
votes
3
replies
2.2k
views
[STAR] How to clear memory after lost --genomeLoad
STAR memory
4.1 years ago by mathieu.bahin ▴ 90
2
votes
4
replies
2.0k
views
How to split big .faa file into smaller .faa files
faa proteomes
updated 4.1 years ago by 9.3k • written 4.1 years ago by • 0
2
votes
5
replies
3.4k
views
MAKER genome annotation error with SNAP ab initio prediction
SNAP annotation genome MAKER
updated 4.0 years ago by 8.8k • written 4.1 years ago by ▴ 120
0
votes
0
replies
1.0k
views
Job: Bioinformatician at Max Planck Institute for plant breeding research (Cologne, Germany)
bioinformatician
updated 2.2 years ago by 45k • written 4.1 years ago by ★ 2.0k
0
votes
1
reply
1.2k
views
normalization two different datasets tcga vs gtex
tcga gtex normalization
updated 4.1 years ago by 22k • written 4.1 years ago by • 0
4
votes
2
replies
1.8k
views
Filtering MSA by similiarity to a consensus sequence/motif
biopython motif multiple alignment MSA python sequence search
updated 4.1 years ago by 22k • written 4.1 years ago by ▴ 70
0
votes
1
reply
1.3k
views
PopGenome - VCF, fasta, GTF and codons still missing
PopGenome VCF
updated 4.1 years ago by • 0 • written 4.5 years ago by • 0
3
votes
2
replies
1.1k
views
How can I add KEGG functional categories to whole genome alignments?
alignment annotation technical
4.1 years ago by Ssri • 0
121,804 results • Page 592 of 2437
Recent Votes
Universal Human Reference RNA Sample
Universal Human Reference RNA Sample
Are these 10x samples too low quality for downstream analysis?
Are these 10x samples too low quality for downstream analysis?
C: gmap error: Length XXXX of quality score differs from length XXX of nucleotides
Answer: Question about substitution of KEGG
Answer: Universal Human Reference RNA Sample
Recent Locations • All
france, 24 minutes ago
India, 24 minutes ago
Qatar, 25 minutes ago
United States, 46 minutes ago
India, 57 minutes ago
UCLA, 59 minutes ago
Canada, 1 hour ago
Recent Awards • All
Popular Question to AHerik ▴ 40
Popular Question to jhonatan.henrique • 0
Popular Question to mohammedtoufiq91 ▴ 270
Popular Question to Matteo Ungaro ▴ 130
Popular Question to anasjamshed ▴ 140
Popular Question to m90 ▴ 30
Popular Question to michael.j.apostolides ▴ 80
Recent Replies
Comment: Help with metagenomics viral by cfos4698 ★ 1.1k
It's possible/likely that your sequencing simply didn't recover any virus reads, despite RT-PCR detection. Often there is too much 'other s…
Answer: Split chromosome into smaller fragments to save memory when build xg and gcsa in by Jordan M Eizenga ▴ 740
I would say the answer is unfortunately no. It would be possible to make smaller individual XG indexes, but downstream subcommands in the V…
Comment: Question about substitution of KEGG by dxh0222 ▴ 10
Thanks for your recommendation! I think kofam_scan is suitable for me.
Comment: How to use CAFE from Orthofinder Results by san96 ▴ 190
Hi, are you referring to Orthogroups.GeneCount.tsv? Thank you.
Comment: Universal Human Reference RNA Sample by michael.j.apostolides ▴ 80
For example you can see it here, this is the first one in the table (SRR1215996): https://trace.ncbi.nlm.nih.gov/Traces/index.html?view=ru…
Answer: Universal Human Reference RNA Sample by michael.j.apostolides ▴ 80
I believe here: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=SRP025982 They are from the SEQC https://www-nature-com.proxy3.library.…
Answer: Question about substitution of KEGG by Mensur Dlakic ★ 29k
There is a tool that uses KEGG hidden Markov models and HMMer to scan individual proteins. It is not automated and may require some fiddlin…
Comment: Huge discrepancy between Pipseeker & DRAGEN for Pipseq data by 1769mkc ★ 1.3k
DRAGEN are you using dragen 4.4 release for your workflow?
Comment: RTG (Real Time Genomics) docker image - Problem dealing with different VCFs by Jeremy Leipzig 23k
Your strategy sounds ok but we would need to see your modified file and the exact command you ran to know what happened.
Comment: Huge discrepancy between Pipseeker & DRAGEN for Pipseq data by Arindam ▴ 10
I think for mapping to the reference genome
Comment: Local Synteny Analysis with Uncharacterized Genes by Joe 22k
+1 for `clinker`, came here to make the same suggestion
Comment: Help with metagenomics viral by CECEL • 0
Hi, thanks for answer! I'm using Kraken2, but the classified reads, when put on BLAST, didn't returned nothing, even in Viruses_db...
Comment: How to obtain a refFlat file for the Rat by GenoMax 153k
You can't mix and match genomes and annotation as we discussed in the prior thread. Are you using the genome from UCSC, if you are using th…
Comment: Huge discrepancy between Pipseeker & DRAGEN for Pipseq data by 1769mkc ★ 1.3k
"DRAGEN uses a newer method employing hashtables" you mean the reference builder?
Comment: Split chromosome into smaller fragments to save memory when build xg and gcsa in by 李经纬 • 0
I use `vg construct --region chrom:start-end` to restrict graph to a chromosome region.
Traffic: 3003 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6