search

lucapinello / CRISPResso

Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from sequencing data
Other
131 stars 55 forks source link

Amplicon Sequence #12

Closed steve-shan closed 7 years ago

steve-shan commented 7 years ago

I got this error while the amplicon sequence looks fine in the excel.

ERROR: The amplicon sequence ??ރh?????m? contains wrong characters: ? ? ? ? ? ! ? " $ ) ? ? . 0 4 H 9 D ? I ? K ? ? S U O ? ? ] ? ? ? ? ? ? ? ? ? ? ?

Thanks,

Steve

lucapinello commented 7 years ago

Which tool are you using CRISPResso or CRISPRessoPooled?

steve-shan commented 7 years ago

Crisprpooled

On Dec 2, 2016, at 3:21 PM, Luca Pinello notifications@github.com wrote:

Which tool are you using CRISPResso or CRISPRessoPooled?

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub, or mute the thread.

lucapinello commented 7 years ago

If you share the text file I can take a look.

steve-shan commented 7 years ago

Hello, This is the txt file.

On Dec 2, 2016, at 17:23, Luca Pinello notifications@github.com wrote:

If you share the text file I can take a look.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/lucapinello/CRISPResso/issues/12#issuecomment-264578818, or mute the thread https://github.com/notifications/unsubscribe-auth/AWUxSjT0OMliNBtG4r2FXenTK91rw5-gks5rEJp5gaJpZM4LC8JT.

lucapinello commented 7 years ago

I don't see it, can you share a link to the file?

steve-shan commented 7 years ago

Can you see the excel file?

On Dec 2, 2016, at 17:43, Luca Pinello notifications@github.com wrote:

I don't see it, can you share a link to the file?

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/lucapinello/CRISPResso/issues/12#issuecomment-264582401, or mute the thread https://github.com/notifications/unsubscribe-auth/AWUxSudXuOxZXi6qjbzwwffjqRuOPejWks5rEJ74gaJpZM4LC8JT.

lucapinello commented 7 years ago

No, also you need a tsv file to run CRISPRessoPooled per documentation. Excel format is not supported and will not work. Send me the text file you are trying to use not the excel file.

steve-shan commented 7 years ago

Like this?

On Dec 5, 2016, at 12:23, Luca Pinello notifications@github.com wrote:

No, also you need a tsv file to run CRISPRessoPooled per documentation. Excel format is not supported and will not work. Send me the text file you are trying to use not the excel file.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/lucapinello/CRISPResso/issues/12#issuecomment-264917165, or mute the thread https://github.com/notifications/unsubscribe-auth/AWUxStLZFI-PXIGRGAAKfW6VSWIflfo3ks5rFEh5gaJpZM4LC8JT.

CD33 CCCTTCCTCTTTTCTGCTCACACAGGAAGCCCTGGAAGCTGCTTCCTCAGACATGCCGCTGCTGCTACTGCTGCCCCTGCTGTGGGCAGGTGAGTGGCTGTGGGGAGAGGGGTTGTCGGGCTGGGCCGAGCTGACCCTCGTTTCCCCACAGGGGCCCTGGCTATGGATCCAAATTTCTGGCTGCAAGTGCAGGAGTCAGTGACGGTACAGGAGGGTTTGTGCGTCCTCGTGCCCTGCACTTTCTTCCATCCCATACCCTACTACGACAAGAACTCCCCAGTTCATGGTTACTGGTTCCGGGAAGGAGCCATTATATCCAGGGACTCTCCAGTGGCCACAAACAAGCTAGATCAAGAAGTACAGGAGGAGACTCAGGGCAGATTCCGCCTCCTTGGGGATCCCAGTAGGAACAACTGCTCCCTGAGCAT NA NA NA

SIGLEC22P ACATGCCACTGCTGCTACTGCTGCCCCTGCTGTGGGCAGGTGAATGGCTGCGGGGAGAGGGGTTGTCGGGCTGGGCCGAGCTGACCCTCGTTTCCCCACAGGGGCCCTGGCTATGGATCCAAAAATCCGGCTGCAAGTGCAGGAGTCAGTGACGGTACAGGAGGGTTTGTGCGTCCTCGTGCCCTGCACTTTCTCCCATCCCATACCCTACTACAACAGGAATTTCTCAGTTCATGGTTACTGGTTCCGGGAAGGAGCCATTGTATCCAGGGACTCTCCAGTGGCCACAAACAAGCTAGATCAAGAAGTACAGGAGGAGACTCAGGGCTGATTCCGCCTCCTTGGGGATCCCAGTAAGAACAACTGCTCCCTGAGC NA NA NA SIGLEC5 GGAGCATTTCCTTCCCTGACAGCCGGACCTGGGACTGGGCTGGGGCCCTGGCGGATGGAGACATGCTGCCCCTGCTGCTGCTGCCCCTGCTGTGGGGGGGTGAGTGAGCTGAGGGAGGAGGGACAGGCACAGGGGTGAGAAGGGGGGCTGGAGCTGCAGCTGAGCTTCTGTGTCCCCCCAGGGTCCCTGCAGGAGAAGCCAGTGTACGAGCTGCAAGTGCAGAAGTCGGTGACGGTGCAGGAGGGCCTGTGCGTCCTTGTGCCCTGCTCCTTCTCTTACCCCTGGAGATCCTGGTATTCCTCTCCCCCACTCTACGTCTACTGGTTCCGGGACGGGGAGATCCCATACTACGCTGAGGTTGTGGCCACAAACAACCCAGACAGAAGAGTGAAGCCAGAGACCCAG NA NA NA

SIGLEC6 CTCCGCCTCAGAGATGCTACCGCTGCTGCTGCCCCTGCTGTGGGCAGGTGAGTGGGCCAGGGGAGAGGTGCCGTGGGGCTGGGCCGAGCTGACCCTCATGTCTCCATAGGGGCCCTGGCTCAGGAGCGGAGATTCCAGCTGGAGGGGCCAGAGTCACTGACGGTGCAGGAGGGTCTGTGCGTCCTCGTACCCTGCAGATTGCCCACTACCCTTCCAGCCTCGTACTATGGTTATGGCTACTGGTTCCTGGAAGGGGCTGATGTTCCAGTGGCCACAAACGACCCAGACGAAGAAGTGCAGGAGGAGACCCGGGGCCGATTCCACCTCCTCTGGGATCCCAGAAGGAAGAACTGCTCC NA NA NA

SIGLEC12 CTCCTGTGAGGTCACCGTTCAGAACCCACCCCCAACTTCCTGTGCGGCTTCCTCGAAATCTTGAGTTCTCAGTTCCTGAGAGAAGAACCCTGAGGAACAGACTTACCTCAGCAACCCTGGCACCTCCAACCCGACACATGCTACTGCTGCTGCTACTGCTGCCACCCCTGCTCTGTGGGAGAGTGGGGGCTAAGGAACAGAAGGATTACCTGCTGACAATGCAGAAGTCCGTGACGGTGCAGGAGGGCCTGTGTGTCTCTGTGCTTTGCTCCTTCTCCTACCCCCAAAATGGCTGGACTGCCTCCGATCCAGTTCATGGCTACTGGTTCCGGGCAGGGGACCATGTAAGCCGGAACATTCCAGTGGCCACAAACAACCCAGCTCGAGCAGTGCAGGAGGAGACT NA NA NA

SIGLEC17P GCCCTCTTCTCTGCTCACACAGGAAGCCCAGGAAGCCTCTGCCTCAGAGATGCTGCCGCTGCTGCTGCCGCTGCCCCTGCTGTGGGCAGGTGAGTGGCCCTGGGGAGAGGGGCCGTGGGGATGAGCCCATCTGACCCTCATGTCTCCACAGGGCCCTCGCTCAGGATGCAAGATTCCGGCTGGAGATGCCAGAGTCCGTGACGGTGCAGGAGGGTCTGTGCATCTTTGTGCACTGTTCGGTCTTCTACCTCGAGTATGGCTGGAAAGATTCTACCCCTGCTTATGGCCACTGGTTCCGGGAAGGGGTCAGTGTAGACCAGGAGACTCCAGTGGCCACAAACAACTCAACTCAAAAAGTGCAGAAGGAGACCCAGGGCCGATTCCACCTCCTCGGTGATCCCTCAAGGAACAACTGCTCCC NA NA NA

ARHGEF10L CGCCCCATTAGCTTCATGGTGGTTTTCATCACCCCCAACCCCCTGAGCAAGATTTCCTGGGTCAACAGGTTACATTTGGCCAAAATCGGACTCCGTGAGTATAGCCCCAGGGAGAGTGCCTCAGGGGGCAGGGGTGTGGAACGGGGAGGTTTGGGGTGAGTGAGGGTACAGGATGGGTGTTCGGGGTCAGCGGGGGGCAGGGAGGCTTCTGAGTGGGAGGGAGGTGGTGCGGTGGAGAAACAGCTGGGGCCAGAGCCGGAGGCTCTGCTTTGTGACCCTGGACAAGTCACTTCCCCTCTCTGAGCCTCAGCTTCCCCATCCAGGAATTGATGGAACTTGACAGAAAGTAAATTAGTGGTTGCCAGGGACC NA NA NA GHDC GTGCCAGGAGTAGGCAGAAGTGGGCTGTGACAGGTGCATGTGGGCATGGACCCCACAGCCTGGGGCTCAGGAGGGACAAGGAGCTGGGACAGGGTGGATCCCGAGAGAAAGCAAAGCCACTCGGGAGTGGGCAAGAGATATCGTTACGCAGCTGCTGTGTGCCCGACCGACCCTGTCCGAAACCCTTCCTGTACCTTCCCTTCCTCTTCCTTCTTTTCTCCCTTTTTTTTCTTTTCTTTTTTTTTTTGACAGGGTCTCACTCTGTTGCCCAAGCTGGGGTGCAGTGGCACGATCTTGGCTCACTGTAGCCTTGACATCCTGGGCTCAAGGGATCCTCCCATCTCAGCCTCCCAAGTAG NA NA NA VMO1 CTCTCTCACTGCCCCTCCTACCCTAGCTCTGGGAGCCTCTGCCTCCGGGAGCAGGAAATAGGGTTCCGGGAGTGGATTAGTTTTGGGTTTCACTTAATCTGGGAGGCCCTTCCGCAATCGGAGCCCTCACAGAGGCCAAACTGATATAAATCTGCTTAGGAGGCCTGATTCACAGACGCTACAGGATGGAGCGGGGCGCAGGAGCCAAGCTGCTGCCGCTGCTGCTGCTTCTGCGGGCGACTGGTTTCACATGTGCACAGACAGATGGCCGGAACGGCTACACGGCGGTCATCGAAGTGACCAGCGGGGGTCCCTGGGGCGACTGGGCCTGGCCTGAGATGTGTCCCGATGGATTCTTC NA NA NA Chr18 TCTGACAGGCAGGGAAGACTGAGGCAGTGTCTACTGGGCCCTGGTATGAATGGGTCTCTGTGAGGTTAGAAATGGAAGCACGAGTGCAATAGCATTTGTTGCGACTGGAGGGTCAGGCCAAGTCAGAGAGGGTACAGGAAAGTTCGGACTCAAAACCTGGGAAGACACAATGAGGCAAAGATCAAAGATGGGAATTGAAGTTAACTCTGTGAAGCCAAGTGCTCCGAAGGAAGATACCAATATAAGCAGAGTAGGATCAAGACTTAATTGAGTCTTTTGTCCCTGCTTAACGACTCAAGTTAACTTAGCCTCCTCCACCCCTTTTTTTTGGAATGGTATTTCCTTTAAGGACTTTCTTTAAGAAATTCCCGGTGGGG NA NA NA Chr1 GGGGGTAAATAAGACAATCAAGGCAAAATTTTTATACGTGATCTACAAAAATGTCCAAAGAAAGCTCTAAAGGATCACATAGGAGGGAAAGTTTGAGGAAATCTCATAAGGAGGTTACTTTGGTTTGAAATTTGAAAAATCATTAAAGGAAGAGTACAAAAAAGGCTTTGATGCAAGAGAATATGGTTTATAAAATGCCATGTAGCCTAGGATGTCTGGAGTTAGTGTCTGTACAGGAAGGAGAGGTAAGATGGAAAGATTGGTGGAGGCCAGACAGAGGCCCTTATATGCCAGGCTAAAGACTGAATACAATTTTATAGGCAATGAAGAATCATAAAGCACTTTTGAGCAAGAGAGTGGCATGATCA NA NA NA Chr2 TCAGCAAATCTCCTCTTGCTCAACTGAAGATCTTAGGAGGCAAAACAAAATCGATTCATATGGATGCAAGCATTTTCCCACCAGCTGCCACCAGCTCAGGCACAGATGGCTTCTGACACCCATTTGGCTGACAAGGAAAGCCTTAGGGCTGCATTCAAAATGGCTCCAACAGGAGTTGTTAGGAGGTAGAGGAAGTGAAGGGTCTCCAGGCTTAGGAGAGGGAGGCACTGACGGGACAGGATGGGAAGCTGTGGCCCAGCTCCCGAGTGGTCTTTGCACCTGTGACATCGGTTGTGCTTCCTCTGCAGGGGTGGAGTCCAGACTGCGAGGCTGGGCCATCTGCAGGGACCAGCACAGGACAATCAGGTGTCAGGACGTG NA NA NA

lucapinello commented 7 years ago

Yes something like this, but I need the actual file to see if you use a particular encoding that may be problematic. Please send a link to a file don't copy and paste. You can for example upload it on dropbox, google drive etc and share the link otherwise I cannot help you.

steve-shan commented 7 years ago

Google drive shared

On Dec 5, 2016, at 12:41, Luca Pinello notifications@github.com wrote:

Yes something like this, but I need the actual file to see if you use a particular encoding that may be problematic. Please send a link to a file don't copy and paste. You can for example upload it on dropbox, google drive etc and share the link otherwise I cannot help you.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/lucapinello/CRISPResso/issues/12#issuecomment-264922196, or mute the thread https://github.com/notifications/unsubscribe-auth/AWUxShvn15hEz7KKQFApx7_-XZeJhHW2ks5rFEzegaJpZM4LC8JT.

lucapinello commented 7 years ago

I don't see the link

steve-shan commented 7 years ago

https://drive.google.com/drive/u/0/folders/0B5PqUF6wEK5YOUtWQVNrVmY3TlU

On Dec 5, 2016, at 12:52, Luca Pinello notifications@github.com wrote:

I don't see the link

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/lucapinello/CRISPResso/issues/12#issuecomment-264925278, or mute the thread https://github.com/notifications/unsubscribe-auth/AWUxSqCYySLtXPSbxePT-Pdf__7_xPoxks5rFE91gaJpZM4LC8JT.

steve-shan commented 7 years ago

Were you able to get the file?

On Dec 5, 2016, at 12:52 PM, Luca Pinello notifications@github.com wrote:

I don't see the link

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub, or mute the thread.

lucapinello commented 7 years ago

Yes I will take a look soon