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22 results • Page
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23
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18
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916
views
8 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 6 minutes ago by
Mensur Dlakic
★ 27k • written 1 day ago by
noodle
▴ 550
4
votes
15
replies
440
views
How many reads for WGS Sequencing?
WGS
Bacterial-Genomics
2 hours ago by
Ruqaiya
• 0
0
votes
9
replies
2.4k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 1 hour ago by
Ram
43k • written 8 months ago by
Gio
• 0
2
votes
7
replies
1.2k
views
6 follow
Differential Expression using Isoseq-supplemented reference transcriptome
RNA-Seq
Salmon
Isoseq
updated 5 hours ago by
Gordon Smyth
★ 7.0k • written 8 months ago by
Calum
▴ 10
1
vote
7
replies
416
views
gvcf joint calling
WES
GATK
VCF
gVCF
22 hours ago by
zihanss
• 0
2
votes
5
replies
272
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
25 minutes ago by
analyst
▴ 30
2
votes
5
replies
378
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
12 hours ago by
ashaneev07
▴ 20
0
votes
4
replies
183
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 11 hours ago by
dsull
★ 5.9k • written 12 hours ago by
jinyu
▴ 10
1
vote
3
replies
318
views
Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:1.1.1.4, 1.1.1.-, 1.1.1.303)?
ontology
metagenomics
database
enzymes
genomics
updated 10 hours ago by
Mensur Dlakic
★ 27k • written 2 days ago by
O.rka
▴ 710
1
vote
3
replies
226
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 12 hours ago by
ATpoint
82k • written 1 day ago by
Francesco
▴ 10
1
vote
3
replies
328
views
PCA plot
DESeq2
PCAplot
updated 11 hours ago by
LauferVA
4.2k • written 4 days ago by
Aaliya
▴ 10
2
votes
2
replies
124
views
PDB related issue
rcsb
pdb
updated 7 hours ago by
noodle
▴ 550 • written 10 hours ago by
Nafi
• 0
0
votes
1
reply
700
views
Can I run cellassign on samples independently if there is batch effect present?
RNA-Seq
R
cellassign
batch-effect
updated 19 hours ago by
Francesco
▴ 10 • written 3.3 years ago by
gt
▴ 30
1
vote
1
reply
189
views
ChIP-seq datasets: input samples omitted?
ChIP-seq
Normalization
NGS
updated 8 hours ago by
ATpoint
82k • written 2 days ago by
vanbelj
▴ 40
0
votes
1
reply
108
views
Downloading full alignments from Pfam
pfam
updated 14 hours ago by
GenoMax
141k • written 19 hours ago by
bef1
• 0
0
votes
0
replies
16
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 1 hour ago by
Ram
43k • written 1 hour ago by
WUSCHEL
▴ 750
0
votes
0
replies
79
views
Finding batch and outlayers
Pca
updated 1 hour ago by
Ram
43k • written 6 hours ago by
Tigran
• 0
0
votes
0
replies
70
views
adjusting for confounders in LMER in R
confounders
LMER
R
23 hours ago by
rene.j.erhardt
▴ 20
0
votes
0
replies
58
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annoration
updated 1 hour ago by
Ram
43k • written 11 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
10
views
Differential accessibility using DiffBinf
diffbind
1 hour ago by
Shloka
• 0
0
votes
0
replies
14
views
Can I merge Hi-C fastq files from different lanes?
GenomeAssembly
BWA-MEM2
Hi-C
2 hours ago by
Winter
• 0
0
votes
0
replies
15
views
vg call vs vg surject
variation
graphs
1 hour ago by
aliraza3119
• 0
22 results • Page
1 of 1
Recent Votes
Answer: NGS forensics: how to know if data is fabricated
Comment: PDB related issue
Comment: PDB related issue
Comment: NGS forensics: how to know if data is fabricated
Comment: How many reads for WGS Sequencing?
Comment: How many reads for WGS Sequencing?
Comment: How many reads for WGS Sequencing?
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Popular Question
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Zhenyu Zhang
★ 1.2k
Popular Question
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WUSCHEL
▴ 750
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Mensur Dlakic
★ 27k
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Recent Replies
Comment: NGS forensics: how to know if data is fabricated
by
Mensur Dlakic
★ 27k
Appreciate the suggestion, but that ship has sailed and reached the other shore. This happened 10+ years ago. To the best of my knowledge n…
Comment: Figures are disappeared from html report of SnpEff
by
analyst
▴ 30
Files are not opening in any of the computer (ubuntu/windows). I rereun snpEff annotation but still output html files are having missing im…
Comment: Figures are disappeared from html report of SnpEff
by
analyst
▴ 30
I reinstalled nodejs: > sudo apt-get install nodejs Its already up to date with version v10.19.0
Answer: NGS forensics: how to know if data is fabricated
by
Prash
▴ 280
Mensur, if I were you, I'd probably contact the CA directly and check with him whether they have reproduced the works recently. There coul…
Comment: NGS forensics: how to know if data is fabricated
by
noodle
▴ 550
Working on it - it's actually a bit difficult. Low coverage of ribosomal proteins. Low coverage of housekeeping genes ...I'm trying to find…
Comment: NGS forensics: how to know if data is fabricated
by
noodle
▴ 550
I'm a bit against pubpeer - have you ever posted there? My gripe with them is that the posts are heavily moderated and EDITED to the point…
Comment: NGS forensics: how to know if data is fabricated
by
Philipp Bayer
8.4k
Thanks Mensur! I'd add that in 9 out of 10 cases, you won't receive a reply to a request for raw data. That's just how scientists are, does…
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
I had downloaded the two files in a similar manner actually.
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
ok, i'll try to use fastp. I have only used trimmomatic and cutadapt till now and they dont identify on its own. Except the graph in fastqc…
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
got it! even if i'm doing the assembly for paired end with both the files do i have set the threshold to 1000bp ?
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…
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
▴ 550
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…
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