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116,638 results • Page
3 of 2333
Sort: Rank
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Views
Votes
Replies
5
votes
3
replies
258
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
updated 5 days ago by
GenoMax
141k • written 5 days ago by
Estevão
• 0
0
votes
3
replies
253
views
Difference between samtools "-f 9" and "-f 11"
samtools
sam
bam
updated 5 days ago by
Istvan Albert
100k • written 5 days ago by
Dylan
• 0
2
votes
5
replies
309
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
2 days ago by
Lada
▴ 30
4
votes
11
replies
703
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 5 days ago by
LauferVA
4.2k • written 6 days ago by
dominickd
• 0
8
votes
16
replies
885
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 2 days ago by
bk11
★ 2.4k • written 7 weeks ago by
Sofia
• 0
0
votes
0
replies
98
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
5 days ago by
ohtang7
▴ 40
3
votes
0
replies
123
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 5 days ago by
Ram
43k • written 5 days ago by
carlopecoraro2
★ 2.5k
2
votes
2
replies
432
views
Using vg gamsort with naive sorting algorithm
gamsort
vg
updated 5 days ago by
Pierre Lindenbaum
161k • written 8 months ago by
AshleeThomson
▴ 80
0
votes
1
reply
164
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 5 days ago by
GenoMax
141k • written 5 days ago by
Srinka
▴ 20
8
votes
5
replies
5.4k
views
ISCN annotation for SV/CN VCF files
SV
written 7 months ago by
a.beggs
▴ 60
0
votes
5
replies
322
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
4 days ago by
njornet
▴ 20
5
votes
4
replies
642
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
4 days ago by
kirillkirilenko
▴ 40
0
votes
0
replies
92
views
Software to calculate RSCU, ENC other than codonw
rscu
codonw
updated 5 days ago by
Ram
43k • written 5 days ago by
SHREYA
• 0
0
votes
3
replies
389
views
How to identify gaps in a genome?
awk
seqkit
assembly
fasta
genome
updated 5 days ago by
colindaven
6.4k • written 13 days ago by
rj.rezwan
• 0
0
votes
0
replies
99
views
Merging replicates from Encode project
CHIP-seq
encode
5 days ago by
Nurken
• 0
1
vote
3
replies
230
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
5 days ago by
WouterDeCoster
47k
0
votes
3
replies
227
views
Help for coding: Trinity for differential gene expression studies
Gene
updated 5 days ago by
mchour
• 0 • written 5 days ago by
rhossen
• 0
1
vote
1
reply
163
views
WGCNA preservation analysis
WGCNA
preservation
updated 5 days ago by
Michael
54k • written 5 days ago by
michael.flower.14
▴ 180
1
vote
3
replies
269
views
some error in building kraken2 database
metagenome
kraken2
5 days ago by
Art1ess
• 0
0
votes
1
reply
145
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 5 days ago by
bk11
★ 2.4k • written 5 days ago by
Susmita Mandal
▴ 110
0
votes
1
reply
138
views
Plots for DNA methylation data
plots
DNA
methylation
updated 5 days ago by
GenoMax
141k • written 5 days ago by
sarahawan92
▴ 10
0
votes
3
replies
497
views
python file for coding potential calculator
cpc2.py
updated 5 days ago by
atharvakarkare14
▴ 10 • written 10 days ago by
Ashok
• 0
1
vote
1
reply
173
views
Failed kmer content
kmer
illumina
ngs
updated 5 days ago by
Ram
43k • written 5 days ago by
Kasturi
• 0
0
votes
0
replies
163
views
Forum:
Improvement on automatic annotation of single-cell RNA-seq data from the literature using LLM
annotation
scRNA
llm
5 days ago by
yxwucq
• 0
0
votes
0
replies
87
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
Copy-number-analysis
R
updated 5 days ago by
Ram
43k • written 5 days ago by
SSSJec
• 0
0
votes
6
replies
327
views
How to slice a gvcf file with tabix?
Tabix
bed
gvcf
5 days ago by
Sd
• 0
0
votes
2
replies
181
views
Help with Base quality Score Recalibration (BQSR) using GATK
GATK
BQSR
6 days ago by
sainavyav22
• 0
0
votes
1
reply
147
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 6 days ago by
Ram
43k • written 6 days ago by
Cameron.walker9900
• 0
0
votes
8
replies
335
views
Error in cnetplot enrichplot package
R
updated 6 days ago by
Ram
43k • written 6 days ago by
Farhad
• 0
3
votes
9
replies
465
views
Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
FASTQ
updated 4 days ago by
Istvan Albert
100k • written 6 days ago by
Κοσμάς
• 0
0
votes
0
replies
110
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 6 days ago by
Ram
43k • written 6 days ago by
maxime.policarpo
▴ 200
3
votes
3
replies
204
views
Genbank vs SRA
ncbi
genbank
genomics
sra
updated 6 days ago by
Mensur Dlakic
★ 27k • written 6 days ago by
c_u
▴ 520
0
votes
0
replies
93
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 6 days ago by
Ram
43k • written 6 days ago by
sansan_96
▴ 80
0
votes
0
replies
97
views
File with NCBI summary or Uniprot description
annotation
visualisation
NCBI
Uniprot
RNA
updated 5 days ago by
Ram
43k • written 6 days ago by
Amélie
• 0
0
votes
0
replies
199
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 6 days ago by
Ram
43k • written 6 days ago by
Oak
▴ 10
1
vote
3
replies
2.5k
views
Problem to remove subset of patients with plink
plink
PED
updated 6 days ago by
chrchang523
10k • written 6.1 years ago by
Ginevra
▴ 10
2
votes
3
replies
210
views
from row count to tpm
tpm
row-count
normalization
5 days ago by
michelafrancesconi9
▴ 20
1
vote
5
replies
284
views
Downsampling fastq file
downsample
fastq
updated 6 days ago by
Ram
43k • written 6 days ago by
marco.barr
▴ 80
2
votes
3
replies
332
views
How to establish haplotype-specific gene expression levels
RNA-seq
Haplotype
updated 2 days ago by
dsull
★ 5.9k • written 19 days ago by
javanokendo
▴ 60
0
votes
1
reply
139
views
tbtool
tbtool
updated 6 days ago by
Ram
43k • written 6 days ago by
Raman
• 0
0
votes
7
replies
330
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 2 days ago by
GenoMax
141k • written 6 days ago by
Patadu94
• 0
3
votes
3
replies
232
views
Getting the nucleotide sequence of proteins, having their UniProt IDs
Nucleotide
Genomic
Sequence
Uniprot
Proteins
updated 6 days ago by
GenoMax
141k • written 6 days ago by
Mariana
▴ 10
0
votes
1
reply
130
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 6 days ago by
ATpoint
82k • written 6 days ago by
enanoide
• 0
0
votes
0
replies
89
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
6 days ago by
manaswwm
▴ 510
3
votes
3
replies
723
views
KissDE and batch effect
kissDE
kissplice
6 days ago by
david.b.rombaut
▴ 10
0
votes
0
replies
80
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
5 days ago by
alifafiq1
• 0
76
votes
72
replies
19k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
4 days ago by
Kevin Blighe
87k
0
votes
0
replies
86
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
6 days ago by
feather-W
• 0
2
votes
4
replies
285
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
4 days ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
85
views
Annotating single cell data automatically
cell
annotation
single
6 days ago by
Gerard
• 0
116,638 results • Page
3 of 2333
Recent Votes
Comment: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
A: Hard time trying to calculate Allele Frequency and DP from Platypus
Answer: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
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▴ 180
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Comment: NGS forensics: how to know if data is fabricated
by
Philipp Bayer
8.4k
i've been in our org trying to push such a detector, our use-case is much more limited: I want to make simulated eDNA libraries as real as …
Answer: Differential Expression using Isoseq-supplemented reference transcriptome
by
Gordon Smyth
★ 7.0k
> What is the best method to test for differential abundance at the isoform level? Salmon returns TPM values instead of the counts which Li…
Answer: Finding batch and outlayers
by
Tigran
• 0
![enter image description here][1] [1]: /media/images/aa60b9ef-b08c-4093-9f0d-fb656a5c
Comment: NGS forensics: how to know if data is fabricated
by
benformatics
3.9k
Can you post an IGV screenshot of what this looks like?
Comment: NGS forensics: how to know if data is fabricated
by
benformatics
3.9k
Yeah some of the Illumina machines pre-trim adapters (not sure if this is still the standard). I've also definitely also seen quality-trimm…
Comment: PDB related issue
by
noodle
▴ 540
You can typically find much more useful info in the cif file, for example what you've found is called '_atom_site.pdbx_PDB_ins_code ' and d…
Comment: PDB related issue
by
Mensur Dlakic
★ 27k
The best way to find out is to read the original paper. My guess is that the residue has been crystallized in alternative conformations, wh…
Answer: NGS forensics: how to know if data is fabricated
by
Mensur Dlakic
★ 27k
I share the opinion by @philippbayer I have seen enough questionable things in life and in science to keep me permanently jaded, but there…
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
I downloaded the data in two files from the link you provided. With this command: megahit -1 ERR072246_1.fastq.gz -2 ERR072246_2.fastq…
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
If you have Linux the assembly should work on your system, but 8 GB is generally not enough for assembling larger genomes.
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
I think you might be getting stuck on less relevant parts of my exercise. The most important point was that nothing is wrong with the data.…
Comment: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
Great comprehensive explanation and overview of the technologies -- with regards to sequencing assays, the one thing I'd add is SNV identif…
Answer: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
I think that term means slightly different things in different contexts. For example, it's useful to profile mRNA modifications (e.g. m6a) …
Comment: Cannot process all the reads in a fast5 file?
by
chujie
• 0
Hi, I met the same problem, have you found the solution?
Answer: What does it mean single base resolution in sequencing?
by
LauferVA
4.2k
Hi @fe3e6f65 , In a single sentence, the answer to your question can be summarized as, "*the resolution of a genomic technology refers to …
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