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crisprseek
•
reset
2
votes
27
replies
4.1k
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
alexgraehl
▴ 20
0
votes
38
replies
3.6k
views
running off target analaysis
crisprseek
7.3 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 7.3 years ago by
elspeth.ransom
• 0
0
votes
5
replies
3.1k
views
Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows
CRISPRseek
2.4 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 3.4 years ago
xenon
▴ 40
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
0
votes
2
replies
2.3k
views
CRISPRseek question on scoring
CRISPRseek
9.8 years ago • updated 5.2 years ago
Julie Zhu
★ 4.3k
6
votes
14
replies
2.1k
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
9.6 years ago • updated 9.0 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.9k
views
CRISPRseek: alternative PAM sequence from NmCas9
CRISPRseek
gRNA searching
offtarget analysis
NmCas9
9.0 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 10.3 years ago by
James W. MacDonald
66k • written 10.3 years ago by
Brodsky, Michael
▴ 10
0
votes
0
replies
1.8k
views
CRISPRseek compare2sequences .Method error - solved
crisprseek
software error
annotation
8.2 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
4.6 years ago
nils.hassel
• 0
2
votes
3
replies
1.8k
views
offTargetAnalysis() Error in weights %*% mismatch.pos : non-conformable arguments (CRISPRSeek)
CRISPRseek
updated 6.8 years ago by
Julie Zhu
★ 4.3k • written 6.8 years ago by
robert_w_link
• 0
0
votes
6
replies
1.7k
views
CRISPRseek CFD score
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
joyce
• 0
1
vote
8
replies
1.7k
views
CRISPRseek with genome not available in BSgenome
bsgenome
crisprseek
updated 6.9 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 6.0 years ago by
Julie Zhu
★ 4.3k • written 6.0 years ago by
Dawid G. Nowak
▴ 40
0
votes
6
replies
1.5k
views
CRISPRseed gRNA.pattern is not producing expected result
crisprseek
updated 7.2 years ago by
Julie Zhu
★ 4.3k • written 7.2 years ago by
prp291
• 0
0
votes
0
replies
1.5k
views
replacement has X rows, data has Y rows
crisprseek
6.4 years ago
robert_w_link
• 0
0
votes
5
replies
1.5k
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
1.5k
views
CRISPRseek OffTargetAnalysis Warning: Error in Hash and NAs introduced by coercion
CRISPRseek
Error in hash
NAs introduced by coercion
updated 4.0 years ago by
Julie Zhu
★ 4.3k • written 4.0 years ago by
nils.hassel
• 0
1
vote
1
reply
1.5k
views
News:
CRISPRseek: generate gRNAs in bed format, useScore argument
CRISPRseek
News
updated 9.6 years ago by
orkanilbay
• 0 • written 9.6 years ago by
Julie Zhu
★ 4.3k
0
votes
1
reply
1.5k
views
Compareequence function is not running
software error
compilation error
CRISPRseek
updated 6.8 years ago by
daniel.vantwisk
▴ 50 • written 6.8 years ago by
susobhanbaidya
• 0
0
votes
5
replies
1.4k
views
CRISPRseek offTargetAnalysis errors
CRISPRseek
6.4 years ago
joyce
• 0
5
votes
11
replies
1.4k
views
CRISPRseek Unusual Error
crisprseek
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.3 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
1.4k
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
0
votes
1
reply
1.2k
views
CRISPRseek gRNA efficacy
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 8.0 years ago by
Hervé Pagès
16k • written 8.0 years ago by
rajewski23
• 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
bhanson1806
• 0
0
votes
3
replies
1.2k
views
CRISPRseek Ouput File Name
CRISPRseek
OutputFileName
updated 7.6 years ago by
Julie Zhu
★ 4.3k • written 7.6 years ago by
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
1
vote
2
replies
1.2k
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
1.2k
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 7.6 years ago by
Julie Zhu
★ 4.3k • written 7.6 years ago by
bhanson1806
• 0
0
votes
5
replies
1.1k
views
CRISPRseek help to generate gRNAs for CRISPRi library
CRISPRseek
updated 4.5 years ago by
Julie Zhu
★ 4.3k • written 4.5 years ago by
Lucka387
• 0
2
votes
3
replies
1.1k
views
offTargetAnalysis takes super long
CRISPRseek
updated 8.6 years ago by
Julie Zhu
★ 4.3k • written 8.7 years ago by
Dawid G. Nowak
▴ 40
1
vote
0
replies
1.1k
views
CRISPRseek orgAnn argument
crisprseek
9.7 years ago
Julie Zhu
★ 4.3k
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 6.9 years ago by
Julie Zhu
★ 4.3k • written 6.9 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 6.5 years ago by
Julie Zhu
★ 4.3k • written 6.5 years ago by
joyce
• 0
0
votes
2
replies
1.0k
views
CRISPRseek offTargetAnalysis score
bioconductor
crisprseek
offtarget analysis
7.6 years ago
Marie
• 0
1
vote
2
replies
982
views
How to understand Summary.xls in output of CRISPRseek
crisprseek
updated 6.0 years ago by
Julie Zhu
★ 4.3k • written 6.0 years ago by
Ou, Jianhong
★ 1.3k
0
votes
2
replies
973
views
Does CRISPRSEEK work on previously unknown genomes?
crisprseek
unknown genome
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
yhuang2
• 0
0
votes
1
reply
963
views
ERROR generated by CRISPRseek
crisprseek
8.2 years ago
Daniel
• 0
0
votes
1
reply
962
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: Error in gseDO function
by
Javier
• 0
Thank you for your answer! The thing is I'm working with 12 genes (I did also some targeted cholesterol efflux-related genes, but for sha…
Comment: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
by
Ali Osman
• 0
Thanks for your response and suggestions @atpoint ! I think implementation of the function is not a problem (I already have some options an…
Comment: DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FU
by
Marek Gierlinski
▴ 30
Two years on and the issue is still there. Thank you Arthur for the solution!
Comment: Cannot install oligo on Fedora
by
mbassal
• 0
so whats the solution for this error?
Comment: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
by
ATpoint
★ 4.2k
I don't have an answer to the "why" but maybe a simple reimplemention will do: ```r seqs <- c("ATCATCGTATCAAAGTC", "AAAACGTATCAAAGTC", "TG…
Votes
A: DESeq2: add annotations (from data frame) to DESeqDataSet
Answer: Error in gseDO function
Comment: what the test method for enrichGO in clusterProfiler?
A: Comparison between two different group's pathway analysis results
DiffBind Batch Effect
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