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179 results • Page
4 of 4
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Replies
0
votes
2
replies
228
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
18 hours ago by
Ahiad Chen Zion
• 0
1
vote
5
replies
334
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
4 days ago by
Riccardo
▴ 10
3
votes
3
replies
224
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
1 day ago by
Adyasha
• 0
0
votes
5
replies
321
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
updated 5 days ago by
Mohamed Abderrahmane
▴ 20 • written 8 days ago by
matteo.levorato
• 0
1
vote
2
replies
233
views
Downloading full alignments from Pfam
pfam
2 days ago by
bef1
• 0
0
votes
4
replies
372
views
Highest variable features in single cell data
single-cell
21 hours ago by
carolofharvest
▴ 30
5
votes
5
replies
606
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 4 days ago by
Mbofire
• 0 • written 13 days ago by
Ming Tommy Tang
★ 3.9k
5
votes
4
replies
386
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
5 days ago by
Estevão
• 0
1
vote
6
replies
352
views
Do I need to go back and filter my long-reads?
alignment
nanopore
filtering
QC
ONT
updated 4 days ago by
GenoMax
142k • written 22 days ago by
eebloom
▴ 80
0
votes
2
replies
238
views
Help with generating annotation database for dog genome to use in ANNOVAR for variant annotation of dog tumor sequences
ANNOVAR
11 hours ago by
sainavyav22
• 0
1
vote
0
replies
189
views
News:
Landscape Genomics course in Switzerland
LFMM
Landscape-Genomics
Sambada
R
Local-Adaptation
5 days ago by
carlopecoraro2
★ 2.5k
1
vote
2
replies
284
views
read length in structural variant calling
nanopore
SV
QC
ONT
variant
4 days ago by
eebloom
▴ 80
0
votes
0
replies
178
views
CellPhoneDB results
cellphonedb
cpdb
cell_surface_proteins
updated 1 day ago by
GenoMax
142k • written 10 weeks ago by
piotto
▴ 20
1
vote
10
replies
846
views
error to run rnammer
phylogenomics
rRNA_extraction
rnammer
updated 2 days ago by
antonio.spl
• 0 • written 3 months ago by
microorganism_001
▴ 30
4
votes
15
replies
1.6k
views
how to test for differential expression in samples where a global increase in gene expression is expected
edgeR
DESeq
Differential-Expression
RNA-Seq
updated 4 days ago by
Gordon Smyth
★ 7.1k • written 4 months ago by
raplayer
▴ 10
1
vote
4
replies
1.1k
views
Filtering qscore on dorado
dorado
filtering
QC
nanopore
Guppy
5 days ago by
eebloom
▴ 80
2
votes
4
replies
709
views
Count all variants from vcf file
variants
vcf
Count
updated 23 hours ago by
Pierre Lindenbaum
161k • written 20 months ago by
t.ali
• 0
29
votes
28
replies
34k
views
11 follow
Split Fastq Files Into Chunks Of 1M Reads
split
fastq
updated 5 days ago by
thomas.heigl.ibk
• 0 • written 12.8 years ago by
Bioscientist
★ 1.7k
5
votes
6
replies
1.8k
views
agilent human all exon sureselct v7 bed file
exon
human
bed
v7
agilent
all
sureselect
updated 2 days ago by
MiladAD
▴ 10 • written 24 months ago by
soheil
• 0
4
votes
9
replies
2.1k
views
6 follow
Same sequencing sample in multiple lanes. How to analyse it?
sequencing
bowtie2
alignment
samtools
ngs
updated 4 days ago by
ST
• 0 • written 2.2 years ago by
Federico
• 0
0
votes
1
reply
545
views
HOMER on AWS
HOMER
updated 5 days ago by
clairechung112
• 0 • written 2.2 years ago by
Bogdan
★ 1.4k
16
votes
12
replies
7.4k
views
10 follow
how to split multi-fasta file into single fasta file named by header
genome
perl
python3
bash
python
updated 4 days ago by
rsieber
▴ 10 • written 3.1 years ago by
Kumar
▴ 120
10
votes
16
replies
17k
views
7 follow
How Can I Count Snps In My Final Vcf Files
SNP
updated 23 hours ago by
Pierre Lindenbaum
161k • written 5.7 years ago by
mostafarafiepour
▴ 180
2
votes
2
replies
1.8k
views
Parametric or non-parametric tests for qPCR significance testing between treatments?
qPCR
statistical test
parametric
non-parametric
updated 4 days ago by
e.r.zakiev
▴ 210 • written 3.8 years ago by
n.anuragsharma
▴ 40
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
2 days ago by
Ibrahim Tanyalcin
★ 1.2k
1
vote
14
replies
2.4k
views
Extract gRNA sequence using cutadapt
cutadapt
trimming
crispr
sequencing
updated 5 days ago by
GenoMax
142k • written 4.5 years ago by
Swimming bird
▴ 20
1
vote
11
replies
5.5k
views
Truncated Bam Error
R
next-gen
sequencing
software error
updated 2 days ago by
guanghao
• 0 • written 6.1 years ago by
vivekruhela
▴ 20
4
votes
6
replies
3.8k
views
How to interpret DEXseq results in therms of significance
DEXseq
RNA-Seq
exon
updated 1 day ago by
Sara
▴ 30 • written 6.7 years ago by
Lila M
★ 1.2k
2
votes
2
replies
2.6k
views
Pindel Segmentation Fault Error
pindel
updated 3 days ago by
Ruqaiya
• 0 • written 10.2 years ago by
Yuelin
▴ 20
179 results • Page
4 of 4
Recent Votes
removeBatchEffect explained using base R linear models
Answer: ChIP-seq datasets: input samples omitted?
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Answer: Is therer any suggestions on mapping rate of WGBS data?
A: Download full list of SNPs and their coordinates in hg38
Answer: HCL database download
Answer: Tissue-specific DEG analysis with DEseq2
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Recent Replies
Answer: CNVKIT - unable to produce scatter and diagram pdfs
by
Anitha
• 0
Hello everyone, I need to call the CNV from my hunam WGS data. I searched for many tutorial, but I did'nt get any proper procedure. I am tr…
Comment: High Malat-1 expression in single cell data
by
t.montserrat.ayuso
▴ 30
I don't think dropout is playing an important role with Malat1 since it is usually highly expressed. On the other hand, if dropout is still…
Comment: java out of memory error through beagle for imutation
by
analyst
▴ 30
Resolved by increasing heapsize of -Xmx50G
Comment: STAR aligner error
by
Ram
43k
Talk to your HPC sysadmin - array jobs might be getting different kinds of nodes compared to standalone jobs.
Comment: Is therer any suggestions on mapping rate of WGBS data?
by
Zeng Jingyu
▴ 60
Thank you for your answer!
Answer: HCL database download
by
sooni
▴ 20
I solved the problem by conneting another internet exploer. I think it was probably a problem with Chrome itself.
Answer: barcode of TCR-sequencing
by
mizraelson
▴ 60
Hi, What protocol did you use for TCR-seq library preparation? Generally speaking, there is no need to remove barcodes, as MiXCR can work …
Comment: Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, C
by
qwertyuiop26
• 0
I've implemented fm index with backward search and need an inexact search to implement on FM index, I couldn't understand how fm index coul…
Comment: Spike-in control found in raw reads (16S amplicon seq) but not picked up by DADA
by
Chris Dean
▴ 400
The md5 hash they refer to on line 22 (f46a7ca244afef522b22a11bd33d27b1) appears to map to a *S. aureus* strain, not *S. hominis* (you can …
Comment: Correlating Bulk Differential Expression with quantitative
by
Qroid
▴ 40
You could try including disease scale for each sample as a design factor. See the vignette here https://bioconductor.org/packages/devel/bio…
Comment: Help with generating annotation database for dog genome to use in ANNOVAR for v
by
sainavyav22
• 0
Hello, Thanks for the reply. I could only see the refMrna.fa file in the link you provided. Where can I get the refGene.txt file. Thanks fo…
Answer: Understanding STAR output (Aligned.out.sam file)
by
heelpPlease
• 0
After thoroughly reviewing all the documents again, I've identified the root cause of my initial issue: the failure to detect essential gen…
Comment: Understanding STAR output (Aligned.out.sam file)
by
heelpPlease
• 0
Thank you! Now that I understand that there is a difference between read and fragment, I could actually find a lot of helpful information..…
Comment: Spike-in control found in raw reads (16S amplicon seq) but not picked up by DADA
by
sovrappensiero
▴ 90
Thanks again. Hmm...this makes me suspicious of whether this normalization is actually possible. In case you'd like to take a look, [here]…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
Jeremy Leipzig
22k
The seven genotypes being 58025AA, 58025AG, 58051TT, 58051TC, 58051CC, 58057TT, 58057TC
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