correspondences

Tools for working with correspondences between biological entities, especially sequences and 3D structures

Name		Name	Last commit message	Last commit date
Latest commit History 55 Commits
consensus_interactions		consensus_interactions
.gitignore		.gitignore
1S72_3U5H_correspondences_511bdc0d6c9b3.csv		1S72_3U5H_correspondences_511bdc0d6c9b3.csv
1S72_4A1B_correspondences_511c06e489650.csv		1S72_4A1B_correspondences_511c06e489650.csv
2AW7_2XZM_correspondences_50dcf947cea37.csv		2AW7_2XZM_correspondences_50dcf947cea37.csv
2AW7_GG16S2012_correspondences.txt		2AW7_GG16S2012_correspondences.txt
2QBD_2AW7_correspondences_5147462ca4e64.csv		2QBD_2AW7_correspondences_5147462ca4e64.csv
2QBD_2AW7_correspondences_5147462ca4e64.txt		2QBD_2AW7_correspondences_5147462ca4e64.txt
2QBD_3I8H_correspondences.txt		2QBD_3I8H_correspondences.txt
2QBD_3I8H_correspondences_514313b142ec5.csv		2QBD_3I8H_correspondences_514313b142ec5.csv
2QBD_3I8H_correspondences_514313b142ec5.txt		2QBD_3I8H_correspondences_514313b142ec5.txt
2QBD_GG16S2012_correspondences.txt		2QBD_GG16S2012_correspondences.txt
2QBG.csv		2QBG.csv
2QBG_1S72_correspondences.csv		2QBG_1S72_correspondences.csv
2QBG_23S_Bacterial_Stombaugh_et_al_Sup_Mat_S3_correspondences.txt		2QBG_23S_Bacterial_Stombaugh_et_al_Sup_Mat_S3_correspondences.txt
2QBG_3U5H_correspondences_511bdafa59aa6.csv		2QBG_3U5H_correspondences_511bdafa59aa6.csv
2QBG_3U5H_correspondences_511bdafa59aa6.txt		2QBG_3U5H_correspondences_511bdafa59aa6.txt
2QBG_3V2F_correspondences_50dd09ef4f614.csv		2QBG_3V2F_correspondences_50dd09ef4f614.csv
2QBG_3V2F_correspondences_50dd09ef4f614.txt		2QBG_3V2F_correspondences_50dd09ef4f614.txt
2QBG_Silva_LSU_Bacteria_2013-03-20_correspondences.txt		2QBG_Silva_LSU_Bacteria_2013-03-20_correspondences.txt
3I8H_GG16S2012_correspondences.txt		3I8H_GG16S2012_correspondences.txt
3V2F_3U5H_correspondences_511bdbc4dc920.csv		3V2F_3U5H_correspondences_511bdbc4dc920.csv
3V2F_3U5H_correspondences_511bdbc4dc920.txt		3V2F_3U5H_correspondences_511bdbc4dc920.txt
AlignmentPrograms.py		AlignmentPrograms.py
CombineCorrespondences.py		CombineCorrespondences.py
CombineCorrespondences_yingju.py		CombineCorrespondences_yingju.py
CompareCorrespondences.py		CompareCorrespondences.py
CompareCorrespondences_yingju.py		CompareCorrespondences_yingju.py
ExtractColumnsForMotifBasepairs.py		ExtractColumnsForMotifBasepairs.py
ExtractColumnsForMotifs.py		ExtractColumnsForMotifs.py
FindBestAlignmentRow.py		FindBestAlignmentRow.py
GG16S2012.fasta		GG16S2012.fasta
GetTopLinesFromFile.py		GetTopLinesFromFile.py
IL_93568.1 IL_1FJG_026 GG16S2012.fasta		IL_93568.1 IL_1FJG_026 GG16S2012.fasta
MakeFASTAFilesForMotifs.py		MakeFASTAFilesForMotifs.py
MatchSequenceToAlignment.py		MatchSequenceToAlignment.py
R3DAlignToCorrespondences.py		R3DAlignToCorrespondences.py
R3DAlignToID.py		R3DAlignToID.py
README.md		README.md
ReadCorrespondences.py		ReadCorrespondences.py
ReadFASTAAlignment.py		ReadFASTAAlignment.py
RemoveGaps.py		RemoveGaps.py
RemoveGapsLA.py		RemoveGapsLA.py
RetrieveColumnsFromAlignment.py		RetrieveColumnsFromAlignment.py
SSU_GG_MSA_escherichia_coli.fasta		SSU_GG_MSA_escherichia_coli.fasta
StructureToSequenceAlignment.py		StructureToSequenceAlignment.py
TestAlignmentPrograms.py		TestAlignmentPrograms.py
TestCombineCorrespondences.py		TestCombineCorrespondences.py
TestCompareCorrespondences.py		TestCompareCorrespondences.py
TestFindBestAlignmentRow.py		TestFindBestAlignmentRow.py
TestMakeFASTAFilesForMotifs.py		TestMakeFASTAFilesForMotifs.py
TestReadCorrespondences.py		TestReadCorrespondences.py
TestReadFASTAAlignment.py		TestReadFASTAAlignment.py
TestRemoveGaps.py		TestRemoveGaps.py
TestRemoveGapsLA.py		TestRemoveGapsLA.py
TestRetrieveColumnsFromAlignment.py		TestRetrieveColumnsFromAlignment.py
TestStructureToSequenceAlignment.py		TestStructureToSequenceAlignment.py
TestThreeWayAlignment.py		TestThreeWayAlignment.py
TestTransposeFASTAAlignment.py		TestTransposeFASTAAlignment.py
TestWriteCorrespondences.py		TestWriteCorrespondences.py
ThreeWayAlignment.py		ThreeWayAlignment.py
TransposeFASTAAlignment.py		TransposeFASTAAlignment.py
TransposeFASTAAlignment_yingju.py		TransposeFASTAAlignment_yingju.py
UseRetrieveColumnsFromAlignment.py		UseRetrieveColumnsFromAlignment.py
WriteCorrespondences.py		WriteCorrespondences.py
WriteCorrespondences_yingju.py		WriteCorrespondences_yingju.py
broken_lines.fasta		broken_lines.fasta
hemoglobin_alpha.fasta		hemoglobin_alpha.fasta
hemoglobin_alpha.txt		hemoglobin_alpha.txt
test.py		test.py

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