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69 results • Page
2 of 2
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0
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77
views
how to get genomic range for hi-c datasets in hdf5 file
hi-c
genomic
map
contact
ranges
R
21 hours ago by
rheab1230
▴ 140
0
votes
0
replies
86
views
BCFtools for somatic vs. germline variant calling
RNA-seq
germline
calling
bcftools
variant
20 hours ago by
rebeliscu
▴ 50
0
votes
0
replies
62
views
Can't initialise orthomcl schema at orthomclInstallschema step.
mysql
perl
orthomcl
11 hours ago by
shivankparashar
• 0
0
votes
0
replies
80
views
calc IBS with vcf files with different snfs
IBS
PLINK
9 hours ago by
Mali
• 0
0
votes
3
replies
194
views
SRA Taxonomy Analysis - difference between tables and web
athena
taxonomy
sra
cloud
updated 8 hours ago by
GenoMax
127k • written 1 day ago by
Art_SG
• 0
0
votes
0
replies
529
views
Are GD format files (gdtools) 0-based?
genomediff
updated 5 hours ago by
Ram
38k • written 3.6 years ago by
Matteo Schiavinato
★ 3.6k
0
votes
5
replies
2.5k
views
Recoding plink file from 12 to 01
plink
plink2chromopaiter.pl
updated 4 hours ago by
Ram
38k • written 5.2 years ago by
dirranrak
▴ 20
0
votes
1
reply
680
views
sleuth fails with unusual error
snakePipes
Sleuth
updated 4 hours ago by
Ram
38k • written 3.1 years ago by
arunprasanna83
▴ 60
0
votes
0
replies
1.6k
views
RSeQC: inner_distance.py explnation
RSeQC
updated 4 hours ago by
Ram
38k • written 5.5 years ago by
KVC_bioinfo
▴ 570
0
votes
2
replies
980
views
Error while aligning with OSA
osa
oshell
updated 4 hours ago by
Ram
38k • written 5.5 years ago by
KVC_bioinfo
▴ 570
0
votes
0
replies
2.5k
views
Download data from HMP via ascp
metagenomics
HMP
updated 4 hours ago by
Ram
38k • written 5.4 years ago by
CAnna
▴ 20
0
votes
1
reply
1.2k
views
Batch downloading of mitochondrial tRNAs from NCBI using Accession
mitochondrial-tRNA
NCBI
updated 4 hours ago by
Ram
38k • written 6.1 years ago by
kabir.deb0353
▴ 60
0
votes
0
replies
659
views
calculate AUC in R per ID and for glucose levels above 10, 11, 12 etc
AUC
trapz
R
updated 4 hours ago by
Ram
38k • written 3.3 years ago by
arbuni736
• 0
0
votes
0
replies
35
views
Deeptools clustering differs when clustering sample as standalone and together with other samples
deepTools
4 hours ago by
jordi.planells
▴ 450
0
votes
0
replies
1.5k
views
RFAM database rRNA/snRNAs Download
RFAM
non-coding-RNA
updated 4 hours ago by
Ram
38k • written 3.9 years ago by
Georgina:)
• 0
0
votes
2
replies
983
views
Downloading NCBI data with geographic location tag
ncbi
genome
gene
updated 4 hours ago by
Ram
38k • written 4.8 years ago by
Willian Klassen de Oliveira
• 0
0
votes
1
reply
82
views
ImportError: Bio.Alphabet has been removed from Biopython
Biopython
updated 4 hours ago by
Wayne
★ 1.6k • written 8 hours ago by
Neel
▴ 10
0
votes
0
replies
269
views
GDCprepare duplication error in R
TCGAbiolinks
R
updated 4 hours ago by
Ram
38k • written 8 months ago by
IK_Afif
• 0
0
votes
2
replies
1.5k
views
TCGA-BRCA downloading issue by GDCquery
TCGABiolinks
TCGA-BRCA
updated 4 hours ago by
Ram
38k • written 21 months ago by
H. Z. Amini
• 0
69 results • Page
2 of 2
Recent Votes
Comment: bioinformatics problems solved by graphs data structure
Comment: bioinformatics problems solved by graphs data structure
Answer: How to analize multiple letters codes in COG IDs?
Answer: PCA in gene expression
Answer: PCA in gene expression
Comment: Enrichment analysis based on kegg for zebrafish
Question on number of possible alignments
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Recent Replies
Comment: How to analize multiple letters codes in COG IDs?
by
Constanza
• 0
Thanks for answering so fast, it was very helpful. I shouldn't pay much attention to if COGs are separated by a comma or not then. As long…
Comment: bioinformatics problems solved by graphs data structure
by
lieven.sterck
14k
well, because this is not you guys' private forum, there are other people participating (not native french speaking) , just to give a reaso…
Answer: How to get gene from PSIBLAST resuts
by
lieven.sterck
14k
what you likely will need to do: 1. get the ID of the protein that you are interested in (out of result from PSIBLAST) 2. lookup that ID…
Answer: How to analize multiple letters codes in COG IDs?
by
Mensur Dlakic
★ 23k
The meaning of individual letters is described in a well-known COG functional code: https://ecoliwiki.org/colipedia/index.php/Clusters_o…
Comment: How to find promoter sequence of a gene?
by
sunyeping
▴ 40
The organism is mice.
Answer: How to generate GFF/GTF file from cDNA transcipts FASTA file?
by
Pierre Lindenbaum
153k
BLAT your cDNAs to the reference. This should be a PSL file that can be converted to a psl->gff3 converter (e.g: https://github.com/gperte…
Comment: RNAseq: same reads + more complete scaffold = fewer DEGs?
by
Darked89
4.2k
You may try to check what happened with DEGs obtained using the 300 fragments assembly by getting the sequences of these genes and comparin…
Comment: ExomeDepth installation error
by
Medha
• 0
Thanks, that did work. Also in next steps, there are some arguments like bam.files, I was wondering do we require to have multiple bam fil…
Comment: ExomeDepth installation error
by
jared.andrews07
★ 14k
No idea, I don't use databricks. I'd read the docs, find a local expert to help you out, or contact their support, likely in that order.
Comment: ExomeDepth installation error
by
Medha
• 0
Hi @jaredandrews07 thanks for reverting back. I am new to R and just want to make sure ExomeDepth is working for the first time. For the Rs…
Comment: Embedded stop codon in translated nucleotide sequences in DAMBE
by
Mensur Dlakic
★ 23k
It is not obvious to me what exact steps you did here, but here is what I do know: there will always be stop codons even in open reading fr…
Comment: Error with a function in ATAC-seq analysis
by
Chris
▴ 70
So you skip the GRanges()? Yes, no error anymore but I am not sure if that causes changing in downstream analysis.
Answer: ClusterProfiler enrichKEGG – remove organism name in plots?
by
jv
★ 1.0k
`stringr::str_remove` can remove " - Mus musculus (house mouse)" from the pathway names which are stored under `KEGGPATHID2NAME$to` in your…
Comment: Error with a function in ATAC-seq analysis
by
jv
★ 1.0k
run `union` on the data frames
Comment: PCA in gene expression
by
ali
• 0
Thanks for your attention. yes I know that we should not omit the samples, I just worry about noises on my differential expression and some…
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