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Showing :
crisprseek
•
reset
2
votes
27
replies
4.0k
views
CRISPRseek package: be aware that as of Oct 2015, CRISPRseek works best for for regions < 200kb
crisprseek
sgrna
crispr
cas9
R
8.6 years ago • updated 8.5 years ago
alexgraehl
▴ 20
0
votes
38
replies
3.5k
views
running off target analaysis
crisprseek
7.2 years ago
Yap-JM
• 0
5
votes
24
replies
3.4k
views
CRISPRseek scoring clarification
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 7.2 years ago by
elspeth.ransom
• 0
0
votes
5
replies
3.0k
views
Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows
CRISPRseek
2.4 years ago • updated 2.3 years ago
Miguel
• 0
2
votes
7
replies
2.7k
views
CRISPRseek Error in .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges") interpretation
CRISPRseek
3.5 years ago • updated 3.3 years ago
xenon
▴ 40
0
votes
2
replies
2.3k
views
CRISPRseek question on scoring
CRISPRseek
9.7 years ago • updated 5.2 years ago
Julie Zhu
★ 4.3k
1
vote
9
replies
2.3k
views
CRISPRseek for Arabidopsis
crisprseek
arabidopsis thaliana
updated 9.5 years ago by
Julie Zhu
★ 4.3k • written 9.5 years ago by
jeremyatwsu
• 0
6
votes
14
replies
2.0k
views
gRNAefficacy calculations in CRISPRseek
crisprseek
crispr
gRNAefficacy
grna
updated 3.7 years ago by
Julie Zhu
★ 4.3k • written 3.7 years ago by
Dawid G. Nowak
▴ 40
0
votes
8
replies
2.0k
views
CRISPRseek: annotate gene
CRISPRseek
9.5 years ago • updated 8.9 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.8k
views
CRISPRseek: alternative PAM sequence from NmCas9
CRISPRseek
gRNA searching
offtarget analysis
NmCas9
8.9 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.8k
views
TxDb file for Drerio (ie zebrafish)
Organism
zebrafish
CRISPRseek
Organism
zebrafish
CRISPRseek
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Brodsky, Michael
▴ 10
0
votes
0
replies
1.8k
views
CRISPRseek compare2sequences .Method error - solved
crisprseek
software error
annotation
8.1 years ago
ragan.pitner
• 0
6
votes
12
replies
1.8k
views
CRISPRseek ERROR, can't read featureWeightMatrix in, wrong data format
CRISPRseek
software error
4.5 years ago
nils.hassel
• 0
2
votes
3
replies
1.7k
views
offTargetAnalysis() Error in weights %*% mismatch.pos : non-conformable arguments (CRISPRSeek)
CRISPRseek
updated 6.7 years ago by
Julie Zhu
★ 4.3k • written 6.7 years ago by
robert_w_link
• 0
0
votes
6
replies
1.7k
views
CRISPRseek CFD score
crisprseek
updated 6.5 years ago by
Julie Zhu
★ 4.3k • written 6.5 years ago by
joyce
• 0
1
vote
8
replies
1.7k
views
CRISPRseek with genome not available in BSgenome
bsgenome
crisprseek
updated 6.8 years ago by
Julie Zhu
★ 4.3k • written 7.2 years ago by
millepattes.intersites
• 0
4
votes
12
replies
1.7k
views
CFDscore calculations used in CRISPRseek
crisprseek
CFDscore
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
Dawid G. Nowak
▴ 40
0
votes
0
replies
1.5k
views
replacement has X rows, data has Y rows
crisprseek
6.3 years ago
robert_w_link
• 0
0
votes
6
replies
1.5k
views
CRISPRseed gRNA.pattern is not producing expected result
crisprseek
updated 7.1 years ago by
Julie Zhu
★ 4.3k • written 7.1 years ago by
prp291
• 0
1
vote
1
reply
1.5k
views
News:
CRISPRseek: generate gRNAs in bed format, useScore argument
CRISPRseek
News
updated 9.5 years ago by
orkanilbay
• 0 • written 9.5 years ago by
Julie Zhu
★ 4.3k
0
votes
5
replies
1.4k
views
CRISPRseek prediction of truncated Nme sgRNA and getting error message
crisprseek
updated 7.2 years ago by
Julie Zhu
★ 4.3k • written 7.2 years ago by
Daniel
• 0
3
votes
10
replies
1.4k
views
CRISPRseek OffTargetAnalysis Warning: Error in Hash and NAs introduced by coercion
CRISPRseek
Error in hash
NAs introduced by coercion
updated 3.9 years ago by
Julie Zhu
★ 4.3k • written 3.9 years ago by
nils.hassel
• 0
0
votes
1
reply
1.4k
views
Compareequence function is not running
software error
compilation error
CRISPRseek
updated 6.7 years ago by
daniel.vantwisk
▴ 50 • written 6.7 years ago by
susobhanbaidya
• 0
0
votes
5
replies
1.4k
views
CRISPRseek offTargetAnalysis errors
CRISPRseek
6.3 years ago
joyce
• 0
5
votes
11
replies
1.4k
views
CRISPRseek Unusual Error
crisprseek
updated 5.2 years ago by
Julie Zhu
★ 4.3k • written 5.2 years ago by
Dawid G. Nowak
▴ 40
1
vote
1
reply
1.4k
views
CRISPRseek R package: description of output fields that are unclear
crisprseek
R
CRISPR
sgRNA
updated 8.3 years ago by
Julie Zhu
★ 4.3k • written 8.3 years ago by
alexgraehl
▴ 20
0
votes
2
replies
1.3k
views
Problem installing CRISPRseek
crisprseek
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
ldumas9
• 0
0
votes
1
reply
1.3k
views
could not find function "hash"
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
joyce
• 0
3
votes
2
replies
1.2k
views
CRISPRseek with (rough) Draft Genome
crisprseek
grna searching
bsgenome forge
offtarget analysis
updated 7.9 years ago by
Hervé Pagès
16k • written 7.9 years ago by
rajewski23
• 0
0
votes
1
reply
1.2k
views
CRISPRseek gRNA efficacy
crisprseek
updated 6.5 years ago by
Julie Zhu
★ 4.3k • written 6.5 years ago by
joyce
• 0
0
votes
0
replies
1.2k
views
CRISPRseek: create own org.Hs.eg.db package
CRISPRseek
org.hs.eg.db
8.9 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.2k
views
"NNG[A|G][A|G]N$" in CRISPRseek code
crisprseek
SaCas9
PAM
6.8 years ago • updated 6.7 years ago
bhanson1806
• 0
0
votes
3
replies
1.2k
views
CRISPRseek with Doench 2016 scores
crisprseek
updated 6.9 years ago by
Julie Zhu
★ 4.3k • written 6.9 years ago by
pavitrarc
▴ 20
0
votes
3
replies
1.2k
views
CRISPRseek Ouput File Name
CRISPRseek
OutputFileName
updated 7.5 years ago by
Julie Zhu
★ 4.3k • written 7.5 years ago by
bhanson1806
• 0
1
vote
2
replies
1.1k
views
CRISPRseek searching requirement
CRISPRSEEK
updated 8.2 years ago by
Julie Zhu
★ 4.3k • written 8.2 years ago by
Daniel
• 0
0
votes
0
replies
1.1k
views
Off Target region
offtarget analysis
crisprseek
6.7 years ago
susobhanbaidya
• 0
0
votes
1
reply
1.1k
views
Help with CRISPRseek inputFilePath
CRISPRseek
input files
updated 7.5 years ago by
Julie Zhu
★ 4.3k • written 7.5 years ago by
bhanson1806
• 0
2
votes
3
replies
1.1k
views
offTargetAnalysis takes super long
CRISPRseek
updated 8.6 years ago by
Julie Zhu
★ 4.3k • written 8.6 years ago by
Dawid G. Nowak
▴ 40
1
vote
0
replies
1.1k
views
CRISPRseek orgAnn argument
crisprseek
9.6 years ago
Julie Zhu
★ 4.3k
0
votes
5
replies
1.1k
views
CRISPRseek help to generate gRNAs for CRISPRi library
CRISPRseek
updated 4.4 years ago by
Julie Zhu
★ 4.3k • written 4.4 years ago by
Lucka387
• 0
0
votes
0
replies
1.1k
views
CRISPRseek: searchHits() optimization
Preprocessing
BSgenome
safe
BSgenome
CRISPRseek
Preprocessing
BSgenome
safe
BSgenome
9.8 years ago
Julie Zhu
★ 4.3k
0
votes
1
reply
1.1k
views
CRISPRseek How to get a correct result of searchHits2 ?
crisprseek
graph
updated 6.8 years ago by
Julie Zhu
★ 4.3k • written 6.8 years ago by
liuyue235
• 0
0
votes
0
replies
1.0k
views
set gRNA.pattern and install CRISPRseek
crisprseek
8.0 years ago
Julie Zhu
★ 4.3k
0
votes
4
replies
1.0k
views
CRISPRseek:::findgRNAs paired gRNAs with PAM inward orientation
CRISPRseek
paired gRNA
updated 4.9 years ago by
Julie Zhu
★ 4.3k • written 4.9 years ago by
saba.parvez
• 0
0
votes
1
reply
1.0k
views
CRISPRseek offTargetAnalysis error
crisprseek
updated 6.4 years ago by
Julie Zhu
★ 4.3k • written 6.4 years ago by
joyce
• 0
0
votes
2
replies
996
views
CRISPRseek offTargetAnalysis score
bioconductor
crisprseek
offtarget analysis
7.5 years ago
Marie
• 0
1
vote
2
replies
966
views
How to understand Summary.xls in output of CRISPRseek
crisprseek
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
Ou, Jianhong
★ 1.3k
0
votes
2
replies
958
views
Does CRISPRSEEK work on previously unknown genomes?
crisprseek
unknown genome
updated 6.5 years ago by
Julie Zhu
★ 4.3k • written 6.5 years ago by
yhuang2
• 0
0
votes
1
reply
957
views
ERROR generated by CRISPRseek
crisprseek
8.1 years ago
Daniel
• 0
0
votes
1
reply
949
views
CFD scores for searchHits?
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
joyce
• 0
50 results • Page
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Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
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