Limit : all time
all time today this week this month this year
122,212 results • Page 703 of 2445
Sort: Rank
Rank Views Votes Replies
0
votes
0
replies
746
views
Is it possible to do an analysis of rna-seq of specific data from dataset or should I do the whole dataset?
RNA-Seq sequence next-gen
4.7 years ago by ashwing.kofficial ▴ 10
1
vote
1
reply
11k
views
Negative normalized Enrichment Score (NES) in GSEA analysis
GSEA
updated 3.3 years ago by 45k • written 10.0 years ago by ▴ 700
6
votes
10
replies
3.8k
views
Removing chrEBV reads from bam file
bam genome
updated 2.7 years ago by 45k • written 4.7 years ago by ▴ 810
3
votes
5
replies
5.3k
views
Problems with ArrayExpress datasets downloads on Bioconductor
arrayExpress bioconductor
updated 4.7 years ago by ▴ 60 • written 6.8 years ago by ▴ 120
0
votes
0
replies
934
views
News: Learn how to do modern reproducible data science
Snakemake Workflows Nextflow
updated 2.8 years ago by 45k • written 4.7 years ago by ★ 2.7k
0
votes
2
replies
3.2k
views
Variant calling 10x 3' scRNA data?
10x rna-seq RNA-Seq snp
4.7 years ago by scrnaresearch ▴ 10
0
votes
5
replies
2.0k
views
How to calculate p-values from PLINK output by hand
plink p-values
4.7 years ago by L_to_the_m ▴ 10
8
votes
9
replies
3.7k
views
BLASTP - HSPs and bitscores
BLASTP hsp bit-score
updated 4.7 years ago by 16k • written 4.7 years ago by ▴ 140
0
votes
0
replies
891
views
News: Noncoding RNA conference (including bioinformatics)
conference RNA noncoding-RNA
updated 2.8 years ago by 45k • written 4.7 years ago by ▴ 20
7
votes
19
replies
5.0k
views
DNA sequence complexity with a sliding window
R python dna
updated 4.7 years ago by 154k • written 4.7 years ago by ▴ 750
0
votes
1
reply
1.3k
views
Instrumental Variables and confounder in Mendelian Randomization
Variables Mendelian randomization Instrumental
4.6 years ago by Shicheng Guo ★ 9.6k
1
vote
1
reply
1.7k
views
Is there any problem on Mendelian Randomization analysis with binary exposure and outcome?
SNP
updated 4.7 years ago by • 0 • written 7.2 years ago by ▴ 10
2
votes
4
replies
3.3k
views
[OP Inactive] clusterProfiler (enrichKEGG) error
kegg clusterProfiler Guangchuang Yu
updated 4.7 years ago by 20 • written 7.6 years ago by ▴ 30
4
votes
6
replies
2.2k
views
Weird MAplot with DEGs lying along the diagonals
microarray maplot normalization agilent
updated 4.7 years ago by 13k • written 4.7 years ago by ▴ 20
0
votes
2
replies
1.8k
views
Searching for a free alternative to IPA
rna-seq ipa
4.7 years ago by francesca3 ▴ 160
0
votes
2
replies
1.4k
views
freebayes calls presumably homozygous variants as heterozygotes
SNP freebayes variant-call genotyping
updated 20 months ago by • 0 • written 4.7 years ago by • 0
1
vote
3
replies
1.6k
views
Mapping reads to contigs with BBMap - output statistics question (metagenome)
Assembly alignment Metagenome
4.7 years ago by bioknown • 0
0
votes
0
replies
702
views
How to select parameters for RNAplfold?
RNA-Seq rna-seq sequence
4.7 years ago by qwesxadzc9 • 0
1
vote
0
replies
887
views
Measuring Co-Occurrence of Gene Clusters (Bacteria)
antismash gene clusters co-occurrence
4.7 years ago by biohacker_tobe ▴ 80
4
votes
13
replies
5.3k
views
Creating a Contingency Table (Gene Absence Presence)
gene R microbes dataframe genome
4.7 years ago by biohacker_tobe ▴ 80
0
votes
0
replies
1.3k
views
Co-Occurrence Heatmap Creation
ggplot2 r R heatmap statistics
4.7 years ago by biohacker_tobe ▴ 80
6
votes
3
replies
8.1k
views
Co-Occurrence Network Graph & Statistics
R networks dataframe
4.7 years ago by biohacker_tobe ▴ 80
6
votes
3
replies
5.9k
views
Run R in multi threaded
R
updated 4.7 years ago by ★ 90k • written 9.8 years ago by ▴ 990
0
votes
0
replies
675
views
need advice for comparing fragment counts of genes across multiple WGS metagenomes
WGS normalization KMA
4.7 years ago by sapuizait ▴ 10
0
votes
0
replies
895
views
Forum: Tools to check if the user defined pathway is enriched in the data
RNA-Seq sequencing R
updated 2.7 years ago by 45k • written 4.7 years ago by ▴ 60
1
vote
1
reply
2.3k
views
Why is my miRNA-seq mapping rate so low?
sequencing miRNA miRNA-seq RNA-Seq
4.7 years ago by cecilomar6 • 0
1
vote
3
replies
1.2k
views
How to include NCBI blastp while making an online database?
python database NCBI
updated 4.7 years ago by ★ 3.3k • written 4.7 years ago by ▴ 90
0
votes
3
replies
1.0k
views
LeuceGene AML data Survival, Clinical and Mutation Data
RNA-Seq AML
4.7 years ago by onkarmulay10 • 0
0
votes
0
replies
909
views
tophat2 mapping fr-firststrand or fr-secondstrand ?
tophat2 fr-firststrand fr-secondstrand AB SOLiD
4.7 years ago by debitboro ▴ 270
1
vote
3
replies
1.6k
views
What file to use for Deseq2 and where to get it from
RNA-Seq sequencing next-gen
updated 4.7 years ago by 90k • written 4.7 years ago by ▴ 10
0
votes
0
replies
871
views
DAVID Bioinformatics tool
David data visulization
4.7 years ago by joyeeta.dutta.in • 0
0
votes
2
replies
883
views
Error in platanus: file format exception
assembly
4.7 years ago by yamkelamgwatyu • 0
1
vote
3
replies
2.5k
views
Can we compare peaks of different transcription factors when they were obtained by different criteria (IDR/FDR)?
ChIP-Seq IDR RNA-Seq
updated 4.7 years ago by 20 • written 7.3 years ago by ▴ 550
0
votes
2
replies
1.6k
views
KOBAS 3.0 web server is down
KOBAS
updated 4.5 years ago by • 0 • written 4.7 years ago by • 0
2
votes
7
replies
1.9k
views
dual-RNA seq combined reference alignment
RNA-Seq
updated 4.7 years ago by • 0 • written 5.6 years ago by ▴ 20
1
vote
5
replies
2.4k
views
what are the best metagenome assemblers?
assembly
updated 4.7 years ago by • 0 • written 5.2 years ago by • 0
2
votes
2
replies
5.4k
views
Genome repeat masking before gene annotation
genome-annotation
updated 2.7 years ago by 45k • written 8.2 years ago by ▴ 60
0
votes
1
reply
987
views
[WGS] how to correctly visualize long indels (50nt+)
wgs indel visualization igv gatk
4.7 years ago by memento1984_1 • 0
0
votes
1
reply
921
views
How to retrieve representative at 30% sequence identity in PDB
PDB
updated 4.7 years ago by 154k • written 4.7 years ago by • 0
0
votes
0
replies
681
views
concatenate the human genome fasta file with the SARS-COV2 virus
RNA-Seq genome assembly
4.7 years ago by FarnazTabrizi95 • 0
0
votes
3
replies
1.5k
views
Functional annotation of DESeq2 results?
RNA-Seq rna-seq gene R
4.6 years ago by snow4964 ▴ 10
0
votes
0
replies
1.8k
views
Job: Exciting Bioinformatician/Statistician Opportunity at Gladstone Insitutes (San Francisco)
RNA-Seq genome R sequencing
updated 2.7 years ago by 45k • written 4.7 years ago by ▴ 20
0
votes
0
replies
822
views
Can I use a subset of VCF my files for quality checks?
quality checks relatedness vcf
updated 4.7 years ago by 20 • written 4.9 years ago by • 0
2
votes
1
reply
1.1k
views
Prepare a GenBank submission: Can you turn this Perl script into a one-liner?
assembly perl code-golf
updated 4.7 years ago by 154k • written 4.7 years ago by 56k
2
votes
3
replies
3.9k
views
Making plots for enrichment and KEGG results
R gene
updated 4.7 years ago by ▴ 300 • written 4.7 years ago by • 0
0
votes
2
replies
1.1k
views
Linear regression on genotype data
SNP
updated 4.7 years ago by ▴ 300 • written 4.7 years ago by ▴ 30
2
votes
2
replies
2.1k
views
clusterProfiler Results not showing
clusterprofiler RNA-Seq R enrichKEGG
updated 4.7 years ago by ▴ 300 • written 4.7 years ago by ▴ 10
0
votes
0
replies
962
views
Using InterProScan - ATPase results only
sequence InterProScan annotation
4.7 years ago by damt09 • 0
0
votes
0
replies
777
views
Why do my polysome and monosome-RNAs map to less exons?
RNA-Seq sequencing alignment next-gen Assembly
4.7 years ago by joetaylor268 ▴ 20
0
votes
0
replies
847
views
Variant Calling when Genetic Distance between Reference and Samples is Greater than it is for Humans: Does GATK still perform well?
GATK variant calling MASH
4.7 years ago by robertwhbaldwin • 0
122,212 results • Page 703 of 2445
Recent Votes
A: PCA in a RNA seq analysis
what cause poly-G from NextSeq
what cause poly-G from NextSeq
A: what cause poly-G from NextSeq
A: what cause poly-G from NextSeq
How to trim transcripts using information from NCBI contamination screen report
How to trim transcripts using information from NCBI contamination screen report
Recent Locations • All
India, 3 minutes ago
Japan, 22 minutes ago
Australia, 36 minutes ago
Hong Kong, 36 minutes ago
Iran, 58 minutes ago
USA, 1 hour ago
United States, 1 hour ago
Recent Awards • All
Popular Question to Amb@r85 ▴ 10
Popular Question to hello_bioinf ▴ 250
Popular Question to tacrolimus ▴ 150
Popular Question to biotrekker ▴ 110
Popular Question to zizigolu ★ 4.4k
Popular Question to Biomed-jeh ▴ 70
Popular Question to gernophil ▴ 130
Recent Replies
Answer: How excactly is the Q30 is calculated? by GenoMax 154k
[**Phred quality scores**][1] have been in use since the 1990s and early days of human genome project. They were co-opted in the fastq form…
Comment: best practice for diploid variant calling by Matteo Ungaro ▴ 130
@kevin thanks I was experimenting with the following since I already pursued most of the approaches you mentioned and, in practice, they ar…
Answer: Chip-seq analysis Diffbind by ATpoint 90k
I think the results are expected. a) n=2 is underpowered, for any assay and in particular for ChIP-seq which has considerable noise. b) you…
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Wu-Sheng Zhang ▴ 10
Hi @arup , after changing the file name following the read length, I can process them using cellranger arc successfully. Thank you very muc…
Comment: Visualize methylation status in Pacbio Hifi read by cmdcolin ★ 4.4k
(as the JBrowse dev) I'm glad to hear this. if you see any trouble with it feel free to let me know, I have tried to keep up to date with m…
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Wu-Sheng Zhang ▴ 10
Got it! I will try to switch their name and re-run the cellranger arc. Thank you very much, @arup !
Answer: low quality data or file name swapping -- cellranger arc errors when processing by Arup Ghosh 3.5k
The barcode files with 24nt read length W71_LUNGrep2_S6_L001_R3_001.fastq.gz and W71_LUNGrep2_S6_L002_R3_001.fastq.gz should be the R2.
Comment: ID unifiying across different datasets by GenoMax 154k
Each database has their own method of annotation/validation. Depending on resources available there may be a lag between the databases in t…
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Wu-Sheng Zhang ▴ 10
Hi @arup , thank you very much for your suggestions, and here are the results -- they seems correct. May I have your suggestions? Thank you…
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding by samuel.a.odonnell ▴ 640
I don't believe merqury ignores softmasked (lower case) nucleotides so I don't think that is the case. From what it sounds like, during th…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
Thanks a lot to be helpful I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 20
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 ▴ 20
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…
Traffic: 4050 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